-- dump date 20120504_161943 -- class Genbank::misc_feature -- table misc_feature_note -- id note 743722000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 743722000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 743722000003 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 743722000004 Walker A motif; other site 743722000005 ATP binding site [chemical binding]; other site 743722000006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000007 Walker B motif; other site 743722000008 arginine finger; other site 743722000009 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 743722000010 DnaA box-binding interface [nucleotide binding]; other site 743722000011 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 743722000012 putative dimer interface [polypeptide binding]; other site 743722000013 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 743722000014 active site 743722000015 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 743722000016 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 743722000017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000018 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; cl16911 743722000019 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 743722000020 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 743722000021 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 743722000022 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 743722000023 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 743722000024 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 743722000025 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 743722000026 dimer interface [polypeptide binding]; other site 743722000027 active site 743722000028 CoA binding pocket [chemical binding]; other site 743722000029 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 743722000030 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 743722000031 carboxyltransferase (CT) interaction site; other site 743722000032 biotinylation site [posttranslational modification]; other site 743722000033 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 743722000034 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 743722000035 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722000036 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 743722000037 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 743722000038 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 743722000039 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 743722000040 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 743722000041 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 743722000042 metal binding site [ion binding]; metal-binding site 743722000043 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 743722000044 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 743722000045 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 743722000046 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 743722000047 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 743722000048 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 743722000049 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 743722000050 active site 743722000051 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 743722000052 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 743722000053 dimer interface [polypeptide binding]; other site 743722000054 active site 743722000055 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 743722000056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000057 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 743722000058 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 743722000059 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 743722000060 substrate binding site [chemical binding]; other site 743722000061 oxyanion hole (OAH) forming residues; other site 743722000062 trimer interface [polypeptide binding]; other site 743722000063 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722000064 Helix-turn-helix domains; Region: HTH; cl00088 743722000065 JmjC domain, hydroxylase; Region: JmjC; cl15814 743722000066 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 743722000067 AMP-binding enzyme; Region: AMP-binding; cl15778 743722000068 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 743722000069 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 743722000070 Zn binding site [ion binding]; other site 743722000071 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 743722000072 protein binding site [polypeptide binding]; other site 743722000073 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722000074 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 743722000075 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 743722000076 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 743722000077 Protein export membrane protein; Region: SecD_SecF; cl14618 743722000078 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722000079 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722000080 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 743722000081 catalytic residues [active] 743722000082 dimer interface [polypeptide binding]; other site 743722000083 Transposase; Region: DDE_Tnp_ISL3; pfam01610 743722000084 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 743722000085 phosphodiesterase; Provisional; Region: PRK12704 743722000086 Protein of unknown function DUF72; Region: DUF72; cl00777 743722000087 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 743722000088 metal binding site [ion binding]; metal-binding site 743722000089 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 743722000090 Recombination protein O N terminal; Region: RecO_N; cl15812 743722000091 Recombination protein O C terminal; Region: RecO_C; pfam02565 743722000092 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 743722000093 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 743722000094 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722000095 active site 743722000096 HIGH motif; other site 743722000097 nucleotide binding site [chemical binding]; other site 743722000098 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722000099 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722000100 active site 743722000101 KMSKS motif; other site 743722000102 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 743722000103 tRNA binding surface [nucleotide binding]; other site 743722000104 anticodon binding site; other site 743722000105 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 743722000106 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 743722000107 lipoprotein signal peptidase; Provisional; Region: PRK14787 743722000108 Protein of unknown function (DUF541); Region: SIMPL; cl01077 743722000109 aconitate hydratase; Validated; Region: PRK09277 743722000110 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 743722000111 substrate binding site [chemical binding]; other site 743722000112 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 743722000113 ligand binding site [chemical binding]; other site 743722000114 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 743722000115 substrate binding site [chemical binding]; other site 743722000116 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 743722000117 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 743722000118 nucleotide binding pocket [chemical binding]; other site 743722000119 K-X-D-G motif; other site 743722000120 catalytic site [active] 743722000121 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 743722000122 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 743722000123 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 743722000124 Dimer interface [polypeptide binding]; other site 743722000125 BRCT sequence motif; other site 743722000126 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 743722000127 dihydrodipicolinate synthase; Region: dapA; TIGR00674 743722000128 dimer interface [polypeptide binding]; other site 743722000129 active site 743722000130 catalytic residue [active] 743722000131 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 743722000132 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 743722000133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722000134 catalytic residue [active] 743722000135 cell division protein FtsZ; Validated; Region: PRK09330 743722000136 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 743722000137 nucleotide binding site [chemical binding]; other site 743722000138 SulA interaction site; other site 743722000139 cell division protein FtsA; Region: ftsA; TIGR01174 743722000140 Cell division protein FtsA; Region: FtsA; cl11496 743722000141 Cell division protein FtsA; Region: FtsA; cl11496 743722000142 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 743722000143 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 743722000144 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 743722000145 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722000146 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 743722000147 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 743722000148 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 743722000149 active site 743722000150 homodimer interface [polypeptide binding]; other site 743722000151 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 743722000152 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 743722000153 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722000154 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 743722000155 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 743722000156 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 743722000157 Mg++ binding site [ion binding]; other site 743722000158 putative catalytic motif [active] 743722000159 putative substrate binding site [chemical binding]; other site 743722000160 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 743722000161 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 743722000162 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722000163 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 743722000164 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 743722000165 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 743722000166 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722000167 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 743722000168 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 743722000169 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; cl16911 743722000170 cell division protein MraZ; Reviewed; Region: PRK00326 743722000171 MraZ protein; Region: MraZ; pfam02381 743722000172 MraZ protein; Region: MraZ; pfam02381 743722000173 BON domain; Region: BON; cl02771 743722000174 Phosphoglycerate kinase; Region: PGK; pfam00162 743722000175 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 743722000176 substrate binding site [chemical binding]; other site 743722000177 hinge regions; other site 743722000178 ADP binding site [chemical binding]; other site 743722000179 catalytic site [active] 743722000180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000181 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 743722000182 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 743722000183 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 743722000184 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 743722000185 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722000186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000187 short chain dehydrogenase; Provisional; Region: PRK12744 743722000188 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 743722000189 NADP binding site [chemical binding]; other site 743722000190 homodimer interface [polypeptide binding]; other site 743722000191 active site 743722000192 substrate binding site [chemical binding]; other site 743722000193 adenylate kinase; Reviewed; Region: adk; PRK00279 743722000194 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 743722000195 AMP-binding site [chemical binding]; other site 743722000196 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 743722000197 GTPase CgtA; Reviewed; Region: obgE; PRK12299 743722000198 GTP1/OBG; Region: GTP1_OBG; pfam01018 743722000199 Obg GTPase; Region: Obg; cd01898 743722000200 G1 box; other site 743722000201 GTP/Mg2+ binding site [chemical binding]; other site 743722000202 Switch I region; other site 743722000203 G2 box; other site 743722000204 G3 box; other site 743722000205 Switch II region; other site 743722000206 G4 box; other site 743722000207 G5 box; other site 743722000208 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_5; cd07238 743722000209 dimer interface [polypeptide binding]; other site 743722000210 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722000211 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 743722000212 catalytic motif [active] 743722000213 Catalytic residue [active] 743722000214 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 743722000215 inhibitor binding site; inhibition site 743722000216 catalytic motif [active] 743722000217 Catalytic residue [active] 743722000218 Active site flap [active] 743722000219 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 743722000220 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722000221 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 743722000222 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 743722000223 AAA domain; Region: AAA_21; pfam13304 743722000224 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 743722000225 catalytic residues [active] 743722000226 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000227 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000228 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 743722000229 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722000230 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722000231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722000232 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 743722000233 FecR protein; Region: FecR; pfam04773 743722000234 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722000235 Domain of unknown function (DUF305); Region: DUF305; cl15795 743722000236 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 743722000237 metal-binding site [ion binding] 743722000238 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 743722000239 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722000240 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722000241 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 743722000242 putative catalytic site [active] 743722000243 putative metal binding site [ion binding]; other site 743722000244 putative phosphate binding site [ion binding]; other site 743722000245 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722000246 SusD family; Region: SusD; pfam07980 743722000247 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000248 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000249 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722000250 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722000251 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 743722000252 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 743722000253 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; cd00249 743722000254 dimerization interface [polypeptide binding]; other site 743722000255 putative active cleft [active] 743722000256 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 743722000257 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 743722000258 putative substrate translocation pore; other site 743722000259 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 743722000260 Helix-turn-helix domains; Region: HTH; cl00088 743722000261 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722000262 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722000263 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 743722000264 Transposase; Region: DDE_Tnp_ISL3; pfam01610 743722000265 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 743722000266 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 743722000267 catalytic residues [active] 743722000268 catalytic nucleophile [active] 743722000269 Recombinase; Region: Recombinase; pfam07508 743722000270 Cupin domain; Region: Cupin_2; cl09118 743722000271 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 743722000272 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722000273 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722000274 Carboxylesterase family; Region: COesterase; pfam00135 743722000275 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 743722000276 substrate binding pocket [chemical binding]; other site 743722000277 catalytic triad [active] 743722000278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000279 NADH(P)-binding; Region: NAD_binding_10; pfam13460 743722000280 NAD(P) binding site [chemical binding]; other site 743722000281 active site 743722000282 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722000283 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722000284 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 743722000285 active site 743722000286 catalytic tetrad [active] 743722000287 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 743722000288 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 743722000289 active site 743722000290 catalytic tetrad [active] 743722000291 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722000292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000293 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722000294 Histidine kinase; Region: His_kinase; pfam06580 743722000295 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722000296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722000297 active site 743722000298 phosphorylation site [posttranslational modification] 743722000299 intermolecular recognition site; other site 743722000300 dimerization interface [polypeptide binding]; other site 743722000301 LytTr DNA-binding domain; Region: LytTR; cl04498 743722000302 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722000303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000304 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 743722000305 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 743722000306 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 743722000307 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722000308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722000309 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 743722000310 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 743722000311 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 743722000312 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 743722000313 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 743722000314 XdhC Rossmann domain; Region: XdhC_C; pfam13478 743722000315 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 743722000316 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 743722000317 FeS/SAM binding site; other site 743722000318 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 743722000319 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 743722000320 N-terminal plug; other site 743722000321 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 743722000322 ligand-binding site [chemical binding]; other site 743722000323 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 743722000324 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 743722000325 MoaE homodimer interface [polypeptide binding]; other site 743722000326 MoaD interaction [polypeptide binding]; other site 743722000327 active site residues [active] 743722000328 Predicted membrane protein [Function unknown]; Region: COG2311 743722000329 Protein of unknown function (DUF418); Region: DUF418; cl12135 743722000330 Protein of unknown function (DUF418); Region: DUF418; cl12135 743722000331 FecR protein; Region: FecR; pfam04773 743722000332 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722000333 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722000334 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 743722000335 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722000336 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000337 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000338 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 743722000339 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 743722000340 catalytic residues [active] 743722000341 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 743722000342 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 743722000343 non-specific DNA binding site [nucleotide binding]; other site 743722000344 salt bridge; other site 743722000345 sequence-specific DNA binding site [nucleotide binding]; other site 743722000346 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 743722000347 non-specific DNA binding site [nucleotide binding]; other site 743722000348 salt bridge; other site 743722000349 sequence-specific DNA binding site [nucleotide binding]; other site 743722000350 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 743722000351 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 743722000352 non-specific DNA binding site [nucleotide binding]; other site 743722000353 salt bridge; other site 743722000354 sequence-specific DNA binding site [nucleotide binding]; other site 743722000355 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 743722000356 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 743722000357 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722000358 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 743722000359 Integrase core domain; Region: rve; cl01316 743722000360 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 743722000361 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 743722000362 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 743722000363 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 743722000364 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722000365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000366 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722000367 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 743722000368 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722000369 putative active site [active] 743722000370 putative metal binding site [ion binding]; other site 743722000371 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722000372 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722000373 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 743722000374 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 743722000375 putative Cl- selectivity filter; other site 743722000376 putative pore gating glutamate residue; other site 743722000377 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 743722000378 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722000379 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722000380 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722000381 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 743722000382 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000383 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722000384 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 743722000385 N-terminal plug; other site 743722000386 ligand-binding site [chemical binding]; other site 743722000387 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722000388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000389 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 743722000390 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 743722000391 ligand binding site [chemical binding]; other site 743722000392 flexible hinge region; other site 743722000393 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 743722000394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000396 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 743722000397 NADH(P)-binding; Region: NAD_binding_10; pfam13460 743722000398 NAD binding site [chemical binding]; other site 743722000399 substrate binding site [chemical binding]; other site 743722000400 putative active site [active] 743722000401 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 743722000402 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 743722000403 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 743722000404 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722000405 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722000406 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000407 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000408 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 743722000409 FecR protein; Region: FecR; pfam04773 743722000410 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722000411 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722000412 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 743722000413 putative transporter; Provisional; Region: PRK10484 743722000414 Sodium:solute symporter family; Region: SSF; cl00456 743722000415 Family of unknown function (DUF706); Region: DUF706; pfam05153 743722000416 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722000417 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722000418 DNA binding site [nucleotide binding] 743722000419 domain linker motif; other site 743722000420 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722000421 dimerization interface [polypeptide binding]; other site 743722000422 ligand binding site [chemical binding]; other site 743722000423 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 743722000424 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722000425 Carboxylesterase family; Region: COesterase; pfam00135 743722000426 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 743722000427 substrate binding pocket [chemical binding]; other site 743722000428 catalytic triad [active] 743722000429 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722000430 PAS fold; Region: PAS_3; pfam08447 743722000431 putative active site [active] 743722000432 heme pocket [chemical binding]; other site 743722000433 PAS fold; Region: PAS_4; pfam08448 743722000434 PAS domain S-box; Region: sensory_box; TIGR00229 743722000435 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722000436 putative active site [active] 743722000437 heme pocket [chemical binding]; other site 743722000438 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 743722000439 dimer interface [polypeptide binding]; other site 743722000440 phosphorylation site [posttranslational modification] 743722000441 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722000442 ATP binding site [chemical binding]; other site 743722000443 Mg2+ binding site [ion binding]; other site 743722000444 G-X-G motif; other site 743722000445 Response regulator receiver domain; Region: Response_reg; pfam00072 743722000446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722000447 active site 743722000448 phosphorylation site [posttranslational modification] 743722000449 intermolecular recognition site; other site 743722000450 dimerization interface [polypeptide binding]; other site 743722000451 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 743722000452 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 743722000453 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 743722000454 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722000455 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 743722000456 putative substrate translocation pore; other site 743722000457 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722000458 DinB superfamily; Region: DinB_2; pfam12867 743722000459 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 743722000460 Right handed beta helix region; Region: Beta_helix; pfam13229 743722000461 Right handed beta helix region; Region: Beta_helix; pfam13229 743722000462 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 743722000463 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 743722000464 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 743722000465 heme-binding residues [chemical binding]; other site 743722000466 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 743722000467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000468 DinB superfamily; Region: DinB_2; pfam12867 743722000469 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722000470 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 743722000471 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 743722000472 conserved cys residue [active] 743722000473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000474 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 743722000475 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 743722000476 non-specific DNA binding site [nucleotide binding]; other site 743722000477 salt bridge; other site 743722000478 sequence-specific DNA binding site [nucleotide binding]; other site 743722000479 Cupin domain; Region: Cupin_2; cl09118 743722000480 Protein of unknown function (DUF808); Region: DUF808; cl01002 743722000481 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 743722000482 dimerization interface [polypeptide binding]; other site 743722000483 putative DNA binding site [nucleotide binding]; other site 743722000484 putative Zn2+ binding site [ion binding]; other site 743722000485 MerT mercuric transport protein; Region: MerT; cl03578 743722000486 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 743722000487 metal-binding site [ion binding] 743722000488 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000489 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 743722000490 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 743722000491 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 743722000492 Cation efflux family; Region: Cation_efflux; cl00316 743722000493 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722000494 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722000495 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722000496 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 743722000497 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 743722000498 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722000499 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722000500 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722000501 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722000502 active site 743722000503 metal binding site [ion binding]; metal-binding site 743722000504 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722000505 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722000506 active site 743722000507 metal binding site [ion binding]; metal-binding site 743722000508 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 743722000509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000510 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 743722000511 Membrane transport protein; Region: Mem_trans; cl09117 743722000512 Low molecular weight phosphatase family; Region: LMWPc; cd00115 743722000513 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 743722000514 active site 743722000515 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 743722000516 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722000517 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722000518 Coenzyme A binding pocket [chemical binding]; other site 743722000519 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 743722000520 dimerization interface [polypeptide binding]; other site 743722000521 putative DNA binding site [nucleotide binding]; other site 743722000522 putative Zn2+ binding site [ion binding]; other site 743722000523 Domain of unknown function (DUF932); Region: DUF932; cl12129 743722000524 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 743722000525 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 743722000526 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 743722000527 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 743722000528 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 743722000529 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 743722000530 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 743722000531 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 743722000532 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 743722000533 RteC protein; Region: RteC; pfam09357 743722000534 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 743722000535 non-specific DNA binding site [nucleotide binding]; other site 743722000536 salt bridge; other site 743722000537 sequence-specific DNA binding site [nucleotide binding]; other site 743722000538 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722000539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722000540 active site 743722000541 phosphorylation site [posttranslational modification] 743722000542 intermolecular recognition site; other site 743722000543 dimerization interface [polypeptide binding]; other site 743722000544 LytTr DNA-binding domain; Region: LytTR; cl04498 743722000545 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722000546 Histidine kinase; Region: His_kinase; pfam06580 743722000547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722000548 putative acyl-acceptor binding pocket; other site 743722000549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000551 Family description; Region: UvrD_C_2; cl15862 743722000552 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 743722000553 PLD-like domain; Region: PLDc_2; pfam13091 743722000554 putative active site [active] 743722000555 catalytic site [active] 743722000556 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 743722000557 non-specific DNA binding site [nucleotide binding]; other site 743722000558 salt bridge; other site 743722000559 sequence-specific DNA binding site [nucleotide binding]; other site 743722000560 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000561 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000562 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 743722000563 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 743722000564 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722000565 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 743722000566 catalytic residues [active] 743722000567 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 743722000568 DoxX; Region: DoxX; cl00976 743722000569 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722000570 YWFCY protein; Region: YWFCY; pfam14293 743722000571 AAA-like domain; Region: AAA_10; pfam12846 743722000572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000573 Walker B motif; other site 743722000574 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 743722000575 Predicted membrane protein [Function unknown]; Region: COG2311 743722000576 Protein of unknown function (DUF418); Region: DUF418; cl12135 743722000577 Protein of unknown function (DUF418); Region: DUF418; cl12135 743722000578 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 743722000579 dimerization interface [polypeptide binding]; other site 743722000580 Domain of unknown function (DUF305); Region: DUF305; cl15795 743722000581 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 743722000582 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722000583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000584 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 743722000585 metal-binding site [ion binding] 743722000586 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722000587 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 743722000588 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 743722000589 metal-binding site [ion binding] 743722000590 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722000591 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722000592 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 743722000593 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 743722000594 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 743722000595 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 743722000596 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722000597 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722000598 Haem-binding domain; Region: Haem_bd; pfam14376 743722000599 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722000600 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 743722000601 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 743722000602 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722000603 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 743722000604 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 743722000605 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722000606 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722000607 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722000608 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 743722000609 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 743722000610 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 743722000611 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 743722000612 catalytic residues [active] 743722000613 catalytic nucleophile [active] 743722000614 Recombinase; Region: Recombinase; pfam07508 743722000615 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722000616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722000617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000618 hypothetical protein; Provisional; Region: PRK07588 743722000619 AAA ATPase domain; Region: AAA_15; pfam13175 743722000620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000621 Walker A/P-loop; other site 743722000622 ATP binding site [chemical binding]; other site 743722000623 Q-loop/lid; other site 743722000624 Pirin-related protein [General function prediction only]; Region: COG1741 743722000625 Cupin domain; Region: Cupin_2; cl09118 743722000626 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 743722000627 DoxX; Region: DoxX; cl00976 743722000628 Helix-turn-helix domains; Region: HTH; cl00088 743722000629 putative transporter; Provisional; Region: PRK11660 743722000630 Sulfate transporter family; Region: Sulfate_transp; cl15842 743722000631 Sulfate transporter family; Region: Sulfate_transp; cl15842 743722000632 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 743722000633 AIPR protein; Region: AIPR; pfam10592 743722000634 integron integrase; Region: integrase_gron; TIGR02249 743722000635 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 743722000636 active site 743722000637 DNA binding site [nucleotide binding] 743722000638 Int/Topo IB signature motif; other site 743722000639 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 743722000640 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722000641 Fic family protein [Function unknown]; Region: COG3177 743722000642 Fic/DOC family; Region: Fic; cl00960 743722000643 Helix-turn-helix domains; Region: HTH; cl00088 743722000644 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 743722000645 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 743722000646 Int/Topo IB signature motif; other site 743722000647 Transposase; Region: DDE_Tnp_ISL3; pfam01610 743722000648 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 743722000649 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 743722000650 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 743722000651 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 743722000652 active site 743722000653 catalytic site [active] 743722000654 hydroxylamine reductase; Provisional; Region: PRK12310 743722000655 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 743722000656 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 743722000657 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 743722000658 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 743722000659 catalytic site [active] 743722000660 active site 743722000661 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 743722000662 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 743722000663 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 743722000664 active site 743722000665 catalytic site [active] 743722000666 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 743722000667 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 743722000668 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 743722000669 oligomerization interface [polypeptide binding]; other site 743722000670 active site 743722000671 metal binding site [ion binding]; metal-binding site 743722000672 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 743722000673 Helix-turn-helix domains; Region: HTH; cl00088 743722000674 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 743722000675 FeoA domain; Region: FeoA; cl00838 743722000676 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 743722000677 SmpB-tmRNA interface; other site 743722000678 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 743722000679 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; cl16911 743722000680 primosome assembly protein PriA; Validated; Region: PRK05580 743722000681 primosome assembly protein PriA; Validated; Region: PRK05580 743722000682 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 743722000683 ATP binding site [chemical binding]; other site 743722000684 putative Mg++ binding site [ion binding]; other site 743722000685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000686 Protein of unknown function (DUF423); Region: DUF423; cl01008 743722000687 PQQ-like domain; Region: PQQ_2; pfam13360 743722000688 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 743722000689 Haemolytic domain; Region: Haemolytic; cl00506 743722000690 Ribonuclease P; Region: Ribonuclease_P; cl00457 743722000691 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 743722000692 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 743722000693 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 743722000694 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 743722000695 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 743722000696 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 743722000697 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 743722000698 N-carbamolyputrescine amidase; Region: PLN02747 743722000699 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 743722000700 putative active site; other site 743722000701 catalytic triad [active] 743722000702 putative dimer interface [polypeptide binding]; other site 743722000703 agmatine deiminase; Region: agmatine_aguA; TIGR03380 743722000704 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 743722000705 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 743722000706 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 743722000707 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 743722000708 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 743722000709 catalytic site [active] 743722000710 subunit interface [polypeptide binding]; other site 743722000711 enolase; Provisional; Region: eno; PRK00077 743722000712 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 743722000713 dimer interface [polypeptide binding]; other site 743722000714 metal binding site [ion binding]; metal-binding site 743722000715 substrate binding pocket [chemical binding]; other site 743722000716 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 743722000717 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 743722000718 NAD(P) binding site [chemical binding]; other site 743722000719 homotetramer interface [polypeptide binding]; other site 743722000720 homodimer interface [polypeptide binding]; other site 743722000721 active site 743722000722 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 743722000723 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 743722000724 ATP cone domain; Region: ATP-cone; pfam03477 743722000725 Class I ribonucleotide reductase; Region: RNR_I; cd01679 743722000726 active site 743722000727 dimer interface [polypeptide binding]; other site 743722000728 catalytic residues [active] 743722000729 effector binding site; other site 743722000730 R2 peptide binding site; other site 743722000731 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 743722000732 dimer interface [polypeptide binding]; other site 743722000733 putative radical transfer pathway; other site 743722000734 diiron center [ion binding]; other site 743722000735 tyrosyl radical; other site 743722000736 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000737 Walker A/P-loop; other site 743722000738 ATP binding site [chemical binding]; other site 743722000739 Q-loop/lid; other site 743722000740 ABC transporter signature motif; other site 743722000741 Walker B; other site 743722000742 D-loop; other site 743722000743 H-loop/switch region; other site 743722000744 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722000745 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722000746 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722000747 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 743722000748 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 743722000749 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 743722000750 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 743722000751 active site 743722000752 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 743722000753 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 743722000754 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 743722000755 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 743722000756 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 743722000757 Glutamate binding site [chemical binding]; other site 743722000758 NAD binding site [chemical binding]; other site 743722000759 catalytic residues [active] 743722000760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722000761 Coenzyme A binding pocket [chemical binding]; other site 743722000762 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 743722000763 putative hydrophobic ligand binding site [chemical binding]; other site 743722000764 putative Hsp90 binding residues [polypeptide binding]; other site 743722000765 Mechanosensitive ion channel; Region: MS_channel; pfam00924 743722000766 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 743722000767 intracellular protease, PfpI family; Region: PfpI; TIGR01382 743722000768 proposed catalytic triad [active] 743722000769 conserved cys residue [active] 743722000770 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 743722000771 putative hydrophobic ligand binding site [chemical binding]; other site 743722000772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 743722000773 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 743722000774 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 743722000775 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722000776 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 743722000777 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722000778 putative substrate translocation pore; other site 743722000779 GTPase Era; Reviewed; Region: era; PRK00089 743722000780 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 743722000781 G1 box; other site 743722000782 GTP/Mg2+ binding site [chemical binding]; other site 743722000783 Switch I region; other site 743722000784 G2 box; other site 743722000785 Switch II region; other site 743722000786 G3 box; other site 743722000787 G4 box; other site 743722000788 G5 box; other site 743722000789 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 743722000790 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 743722000791 Transposase; Region: DDE_Tnp_ISL3; pfam01610 743722000792 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 743722000793 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 743722000794 Ligand Binding Site [chemical binding]; other site 743722000795 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 743722000796 Ligand Binding Site [chemical binding]; other site 743722000797 Protein of unknown function (DUF402); Region: DUF402; cl00979 743722000798 GTP-binding protein Der; Reviewed; Region: PRK00093 743722000799 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 743722000800 G1 box; other site 743722000801 GTP/Mg2+ binding site [chemical binding]; other site 743722000802 Switch I region; other site 743722000803 G2 box; other site 743722000804 Switch II region; other site 743722000805 G3 box; other site 743722000806 G4 box; other site 743722000807 G5 box; other site 743722000808 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 743722000809 G1 box; other site 743722000810 GTP/Mg2+ binding site [chemical binding]; other site 743722000811 Switch I region; other site 743722000812 G2 box; other site 743722000813 G3 box; other site 743722000814 Switch II region; other site 743722000815 G4 box; other site 743722000816 G5 box; other site 743722000817 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722000818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722000819 DNA binding site [nucleotide binding] 743722000820 domain linker motif; other site 743722000821 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722000822 dimerization interface [polypeptide binding]; other site 743722000823 ligand binding site [chemical binding]; other site 743722000824 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 743722000825 active site 743722000826 trimer interface [polypeptide binding]; other site 743722000827 allosteric site; other site 743722000828 active site lid [active] 743722000829 hexamer (dimer of trimers) interface [polypeptide binding]; other site 743722000830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000831 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722000832 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 743722000833 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722000834 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722000835 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000836 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000837 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722000838 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 743722000839 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722000840 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 743722000841 protein binding site [polypeptide binding]; other site 743722000842 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 743722000843 Catalytic dyad [active] 743722000844 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 743722000845 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 743722000846 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 743722000847 substrate binding pocket [chemical binding]; other site 743722000848 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 743722000849 B12 binding site [chemical binding]; other site 743722000850 cobalt ligand [ion binding]; other site 743722000851 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 743722000852 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 743722000853 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 743722000854 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 743722000855 FAD binding site [chemical binding]; other site 743722000856 OsmC-like protein; Region: OsmC; cl00767 743722000857 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000858 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000859 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722000860 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722000861 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 743722000862 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722000863 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722000864 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722000865 active site residue [active] 743722000866 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 743722000867 catalytic residues [active] 743722000868 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 743722000869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000870 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000871 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000872 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 743722000873 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722000874 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722000875 Sulfatase; Region: Sulfatase; cl10460 743722000876 Sulfatase; Region: Sulfatase; cl10460 743722000877 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722000878 active site residue [active] 743722000879 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 743722000880 catalytic residues [active] 743722000881 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 743722000882 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 743722000883 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 743722000884 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 743722000885 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 743722000886 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 743722000887 Walker A/P-loop; other site 743722000888 ATP binding site [chemical binding]; other site 743722000889 Q-loop/lid; other site 743722000890 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 743722000891 ABC transporter signature motif; other site 743722000892 Walker B; other site 743722000893 D-loop; other site 743722000894 H-loop/switch region; other site 743722000895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000896 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 743722000897 NAD(P) binding site [chemical binding]; other site 743722000898 active site 743722000899 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 743722000900 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000901 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 743722000902 non-specific DNA binding site [nucleotide binding]; other site 743722000903 salt bridge; other site 743722000904 sequence-specific DNA binding site [nucleotide binding]; other site 743722000905 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 743722000906 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 743722000907 Clp protease ATP binding subunit; Region: clpC; CHL00095 743722000908 Clp amino terminal domain; Region: Clp_N; pfam02861 743722000909 Clp amino terminal domain; Region: Clp_N; pfam02861 743722000910 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 743722000911 Walker A motif; other site 743722000912 ATP binding site [chemical binding]; other site 743722000913 Walker B motif; other site 743722000914 arginine finger; other site 743722000915 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 743722000916 Walker A motif; other site 743722000917 ATP binding site [chemical binding]; other site 743722000918 Walker B motif; other site 743722000919 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 743722000920 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 743722000921 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 743722000922 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 743722000923 ABC transporter; Region: ABC_tran_2; pfam12848 743722000924 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 743722000925 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 743722000926 Protein of unknown function (DUF458); Region: DUF458; cl00861 743722000927 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722000928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 743722000929 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722000930 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 743722000931 catalytic residues [active] 743722000932 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 743722000933 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722000934 Walker A/P-loop; other site 743722000935 ATP binding site [chemical binding]; other site 743722000936 Q-loop/lid; other site 743722000937 ABC transporter signature motif; other site 743722000938 Walker B; other site 743722000939 D-loop; other site 743722000940 H-loop/switch region; other site 743722000941 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 743722000942 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722000943 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722000944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722000945 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 743722000946 DNA binding residues [nucleotide binding] 743722000947 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 743722000948 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722000949 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 743722000950 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 743722000951 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722000952 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 743722000953 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 743722000954 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 743722000955 Catalytic site [active] 743722000956 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 743722000957 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 743722000958 dihydrodipicolinate reductase; Provisional; Region: PRK00048 743722000959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000960 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 743722000961 ParB-like partition proteins; Region: parB_part; TIGR00180 743722000962 ParB-like nuclease domain; Region: ParBc; cl02129 743722000963 KorB domain; Region: KorB; pfam08535 743722000964 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 743722000965 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 743722000966 P-loop; other site 743722000967 Magnesium ion binding site [ion binding]; other site 743722000968 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 743722000969 Magnesium ion binding site [ion binding]; other site 743722000970 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722000971 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 743722000972 Helix-turn-helix domains; Region: HTH; cl00088 743722000973 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 743722000974 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722000975 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722000976 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722000977 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722000978 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722000979 polyol permease family; Region: 2A0118; TIGR00897 743722000980 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 743722000981 putative substrate translocation pore; other site 743722000982 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 743722000983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722000984 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 743722000985 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 743722000986 N- and C-terminal domain interface [polypeptide binding]; other site 743722000987 active site 743722000988 MgATP binding site [chemical binding]; other site 743722000989 catalytic site [active] 743722000990 metal binding site [ion binding]; metal-binding site 743722000991 carbohydrate binding site [chemical binding]; other site 743722000992 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 743722000993 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 743722000994 N- and C-terminal domain interface [polypeptide binding]; other site 743722000995 active site 743722000996 MgATP binding site [chemical binding]; other site 743722000997 catalytic site [active] 743722000998 metal binding site [ion binding]; metal-binding site 743722000999 carbohydrate binding site [chemical binding]; other site 743722001000 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 743722001001 catalytic core [active] 743722001002 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 743722001003 putative active site [active] 743722001004 catalytic site [active] 743722001005 putative metal binding site [ion binding]; other site 743722001006 oligomer interface [polypeptide binding]; other site 743722001007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722001008 DNA-binding site [nucleotide binding]; DNA binding site 743722001009 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 743722001010 putative ligand binding site [chemical binding]; other site 743722001011 putative dimerization interface [polypeptide binding]; other site 743722001012 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 743722001013 oligomeric interface; other site 743722001014 putative active site [active] 743722001015 homodimer interface [polypeptide binding]; other site 743722001016 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 743722001017 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 743722001018 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 743722001019 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722001020 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 743722001021 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722001022 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722001023 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 743722001024 Sulfatase; Region: Sulfatase; cl10460 743722001025 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 743722001026 active site 743722001027 metal binding site [ion binding]; metal-binding site 743722001028 UbiA prenyltransferase family; Region: UbiA; cl00337 743722001029 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 743722001030 active site 743722001031 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722001032 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001034 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722001035 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 743722001036 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 743722001037 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 743722001038 active site 743722001039 catalytic residues [active] 743722001040 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 743722001041 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 743722001042 Cytochrome c; Region: Cytochrom_C; cl11414 743722001043 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001044 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722001045 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001046 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001047 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 743722001048 FecR protein; Region: FecR; pfam04773 743722001049 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722001050 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001051 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 743722001052 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 743722001053 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722001054 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722001055 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001057 Domain of unknown function (DUF718); Region: DUF718; cl01281 743722001058 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722001059 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 743722001060 active site 743722001061 catalytic triad [active] 743722001062 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 743722001063 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 743722001064 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722001065 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722001066 Pectate lyase; Region: Pec_lyase_C; cl01593 743722001067 Glycosyl hydrolase 43-like family consists of hypothetical proteins; Region: GH43_like_2; cd08994 743722001068 active site 743722001069 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 743722001070 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001071 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001072 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001073 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 743722001074 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 743722001075 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722001076 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722001077 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722001078 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001079 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001080 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001081 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 743722001082 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 743722001083 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001084 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001085 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001086 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001087 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 743722001088 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722001089 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 743722001090 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722001091 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722001092 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722001093 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722001094 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722001095 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722001096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001097 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 743722001098 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 743722001099 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 743722001100 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722001101 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722001102 FecR protein; Region: FecR; pfam04773 743722001103 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001104 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001105 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001106 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 743722001107 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001108 SusD family; Region: SusD; pfam07980 743722001109 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 743722001110 active site 743722001111 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722001112 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 743722001113 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722001114 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001115 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001116 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001117 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001118 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 743722001119 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 743722001120 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722001121 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001122 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001123 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 743722001124 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 743722001125 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722001126 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001127 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722001128 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722001129 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722001130 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722001131 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722001132 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 743722001133 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722001134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722001135 active site 743722001136 phosphorylation site [posttranslational modification] 743722001137 intermolecular recognition site; other site 743722001138 dimerization interface [polypeptide binding]; other site 743722001139 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 743722001140 DNA binding site [nucleotide binding] 743722001141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722001142 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 743722001143 dimer interface [polypeptide binding]; other site 743722001144 phosphorylation site [posttranslational modification] 743722001145 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722001146 ATP binding site [chemical binding]; other site 743722001147 Mg2+ binding site [ion binding]; other site 743722001148 G-X-G motif; other site 743722001149 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 743722001150 N- and C-terminal domain interface [polypeptide binding]; other site 743722001151 active site 743722001152 MgATP binding site [chemical binding]; other site 743722001153 catalytic site [active] 743722001154 metal binding site [ion binding]; metal-binding site 743722001155 carbohydrate binding site [chemical binding]; other site 743722001156 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 743722001157 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 743722001158 short chain dehydrogenase; Validated; Region: PRK08324 743722001159 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 743722001160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001161 NAD(P) binding site [chemical binding]; other site 743722001162 active site 743722001163 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 743722001164 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 743722001165 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 743722001166 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722001167 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722001168 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 743722001169 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722001170 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722001171 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 743722001172 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722001173 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001174 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722001175 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 743722001176 N-terminal plug; other site 743722001177 ligand-binding site [chemical binding]; other site 743722001178 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 743722001179 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 743722001180 ATP binding site [chemical binding]; other site 743722001181 putative Mg++ binding site [ion binding]; other site 743722001182 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 743722001183 nucleotide binding region [chemical binding]; other site 743722001184 ATP-binding site [chemical binding]; other site 743722001185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001186 NAD(P) binding site [chemical binding]; other site 743722001187 active site 743722001188 YceI-like domain; Region: YceI; cl01001 743722001189 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 743722001190 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 743722001191 catalytic nucleophile [active] 743722001192 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 743722001193 Helix-turn-helix domains; Region: HTH; cl00088 743722001194 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 743722001195 EamA-like transporter family; Region: EamA; cl01037 743722001196 EamA-like transporter family; Region: EamA; cl01037 743722001197 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722001198 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 743722001199 Zn2+ binding site [ion binding]; other site 743722001200 Mg2+ binding site [ion binding]; other site 743722001201 polyphosphate kinase; Provisional; Region: PRK05443 743722001202 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 743722001203 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 743722001204 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 743722001205 domain interface [polypeptide binding]; other site 743722001206 active site 743722001207 catalytic site [active] 743722001208 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 743722001209 domain interface [polypeptide binding]; other site 743722001210 active site 743722001211 catalytic site [active] 743722001212 SdiA-regulated; Region: SdiA-regulated; cd09971 743722001213 putative active site [active] 743722001214 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722001215 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722001216 active site 743722001217 metal binding site [ion binding]; metal-binding site 743722001218 Surface antigen; Region: Bac_surface_Ag; cl03097 743722001219 PAP2_like_5 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_5; cd03394 743722001220 active site 743722001221 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722001222 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722001223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722001224 Walker A/P-loop; other site 743722001225 ATP binding site [chemical binding]; other site 743722001226 Q-loop/lid; other site 743722001227 ABC transporter signature motif; other site 743722001228 Walker B; other site 743722001229 D-loop; other site 743722001230 H-loop/switch region; other site 743722001231 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 743722001232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722001233 DNA-binding site [nucleotide binding]; DNA binding site 743722001234 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 743722001235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722001236 homodimer interface [polypeptide binding]; other site 743722001237 catalytic residue [active] 743722001238 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722001239 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 743722001240 putative catalytic residue [active] 743722001241 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 743722001242 catalytic residues [active] 743722001243 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 743722001244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722001245 Coenzyme A binding pocket [chemical binding]; other site 743722001246 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 743722001247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722001248 Coenzyme A binding pocket [chemical binding]; other site 743722001249 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 743722001250 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 743722001251 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722001252 active site 743722001253 HIGH motif; other site 743722001254 nucleotide binding site [chemical binding]; other site 743722001255 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 743722001256 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722001257 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722001258 active site 743722001259 KMSKS motif; other site 743722001260 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 743722001261 tRNA binding surface [nucleotide binding]; other site 743722001262 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 743722001263 FtsX-like permease family; Region: FtsX; cl15850 743722001264 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 743722001265 Bacitracin resistance protein BacA; Region: BacA; cl00858 743722001266 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 743722001267 RNA binding site [nucleotide binding]; other site 743722001268 active site 743722001269 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 743722001270 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 743722001271 active site 743722001272 Riboflavin kinase; Region: Flavokinase; cl03312 743722001273 YceI-like domain; Region: YceI; cl01001 743722001274 OsmC-like protein; Region: OsmC; cl00767 743722001275 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 743722001276 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 743722001277 homodimer interface [polypeptide binding]; other site 743722001278 substrate-cofactor binding pocket; other site 743722001279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722001280 catalytic residue [active] 743722001281 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 743722001282 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 743722001283 Predicted transcriptional regulator [Transcription]; Region: COG1959 743722001284 Helix-turn-helix domains; Region: HTH; cl00088 743722001285 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 743722001286 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 743722001287 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 743722001288 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 743722001289 RNA polymerase sigma factor; Provisional; Region: PRK12513 743722001290 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001291 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 743722001292 DNA binding residues [nucleotide binding] 743722001293 Uncharacterized conserved protein [Function unknown]; Region: COG4850 743722001294 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 743722001295 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 743722001296 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 743722001297 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001299 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 743722001300 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 743722001301 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 743722001302 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 743722001303 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 743722001304 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 743722001305 dimerization interface [polypeptide binding]; other site 743722001306 active site 743722001307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 743722001308 Family of unknown function (DUF490); Region: DUF490; pfam04357 743722001309 UGMP family protein; Validated; Region: PRK09604 743722001310 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 743722001311 recombinase A; Provisional; Region: recA; PRK09354 743722001312 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 743722001313 hexamer interface [polypeptide binding]; other site 743722001314 Walker A motif; other site 743722001315 ATP binding site [chemical binding]; other site 743722001316 Walker B motif; other site 743722001317 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 743722001318 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 743722001319 minor groove reading motif; other site 743722001320 helix-hairpin-helix signature motif; other site 743722001321 substrate binding pocket [chemical binding]; other site 743722001322 active site 743722001323 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 743722001324 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 743722001325 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 743722001326 active site 743722001327 catalytic triad [active] 743722001328 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 743722001329 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; cl16911 743722001330 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 743722001331 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722001332 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722001333 DNA binding site [nucleotide binding] 743722001334 domain linker motif; other site 743722001335 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722001336 dimerization interface [polypeptide binding]; other site 743722001337 ligand binding site [chemical binding]; other site 743722001338 Glucuronate isomerase; Region: UxaC; cl00829 743722001339 mannonate dehydratase; Provisional; Region: PRK03906 743722001340 mannonate dehydratase; Region: uxuA; TIGR00695 743722001341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001342 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 743722001343 NAD(P) binding site [chemical binding]; other site 743722001344 active site 743722001345 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 743722001346 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 743722001347 substrate binding site [chemical binding]; other site 743722001348 ATP binding site [chemical binding]; other site 743722001349 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 743722001350 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 743722001351 active site 743722001352 intersubunit interface [polypeptide binding]; other site 743722001353 catalytic residue [active] 743722001354 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001356 BNR repeat-like domain; Region: BNR_2; pfam13088 743722001357 BNR repeat-like domain; Region: BNR_2; pfam13088 743722001358 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001359 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001360 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001361 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001362 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001363 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 743722001364 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 743722001365 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 743722001366 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 743722001367 putative active site [active] 743722001368 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722001369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722001370 Walker A/P-loop; other site 743722001371 ATP binding site [chemical binding]; other site 743722001372 Q-loop/lid; other site 743722001373 ABC transporter signature motif; other site 743722001374 Walker B; other site 743722001375 D-loop; other site 743722001376 H-loop/switch region; other site 743722001377 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 743722001378 putative substrate binding site [chemical binding]; other site 743722001379 active site 743722001380 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722001381 active site 743722001382 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 743722001383 putative substrate binding site [chemical binding]; other site 743722001384 active site 743722001385 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 743722001386 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 743722001387 active site 743722001388 catalytic residues [active] 743722001389 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722001390 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722001391 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722001392 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 743722001393 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722001394 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722001395 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 743722001396 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 743722001397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 743722001398 Protein of unknown function (DUF3823); Region: DUF3823; pfam12866 743722001399 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001400 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001401 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001402 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001403 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001404 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722001405 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722001406 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722001407 DNA binding site [nucleotide binding] 743722001408 domain linker motif; other site 743722001409 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722001410 dimerization interface [polypeptide binding]; other site 743722001411 ligand binding site [chemical binding]; other site 743722001412 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722001413 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 743722001414 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 743722001415 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722001416 ribulokinase; Provisional; Region: PRK04123 743722001417 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 743722001418 putative N- and C-terminal domain interface [polypeptide binding]; other site 743722001419 putative active site [active] 743722001420 putative MgATP binding site [chemical binding]; other site 743722001421 catalytic site [active] 743722001422 metal binding site [ion binding]; metal-binding site 743722001423 carbohydrate binding site [chemical binding]; other site 743722001424 homodimer interface [polypeptide binding]; other site 743722001425 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722001426 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 743722001427 L-fucose isomerase; Provisional; Region: fucI; PRK10991 743722001428 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 743722001429 hexamer (dimer of trimers) interface [polypeptide binding]; other site 743722001430 trimer interface [polypeptide binding]; other site 743722001431 substrate binding site [chemical binding]; other site 743722001432 Mn binding site [ion binding]; other site 743722001433 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 743722001434 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 743722001435 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001436 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001437 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001438 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001439 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 743722001440 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 743722001441 short chain dehydrogenase; Provisional; Region: PRK08628 743722001442 classical (c) SDRs; Region: SDR_c; cd05233 743722001443 NAD(P) binding site [chemical binding]; other site 743722001444 active site 743722001445 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 743722001446 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 743722001447 active site 743722001448 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 743722001449 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 743722001450 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 743722001451 classical (c) SDRs; Region: SDR_c; cd05233 743722001452 NAD(P) binding site [chemical binding]; other site 743722001453 active site 743722001454 galactarate dehydratase; Region: galactar-dH20; TIGR03248 743722001455 SAF domain; Region: SAF; cl00555 743722001456 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 743722001457 Domain of unknown function (DUF718); Region: DUF718; cl01281 743722001458 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722001459 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 743722001460 Cupin domain; Region: Cupin_2; cl09118 743722001461 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722001462 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722001463 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 743722001464 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001466 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001468 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 743722001469 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722001470 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722001471 DNA binding site [nucleotide binding] 743722001472 domain linker motif; other site 743722001473 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722001474 dimerization interface [polypeptide binding]; other site 743722001475 ligand binding site [chemical binding]; other site 743722001476 Methane oxygenase PmoA; Region: PmoA; pfam14100 743722001477 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001478 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001479 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001480 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001481 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001482 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 743722001483 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001484 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001485 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 743722001486 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001487 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001488 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 743722001489 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 743722001490 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722001491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 743722001492 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722001493 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001495 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722001496 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 743722001497 MG2 domain; Region: A2M_N; pfam01835 743722001498 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001499 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001500 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722001501 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001502 Gram-negative bacterial tonB protein; Region: TonB; cl10048 743722001503 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722001504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001505 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 743722001506 DNA binding residues [nucleotide binding] 743722001507 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001508 von Willebrand factor; Region: vWF_A; pfam12450 743722001509 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 743722001510 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 743722001511 metal ion-dependent adhesion site (MIDAS); other site 743722001512 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 743722001513 Predicted esterase [General function prediction only]; Region: COG0400 743722001514 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 743722001515 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 743722001516 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722001517 Zn binding site [ion binding]; other site 743722001518 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 743722001519 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722001520 Zn binding site [ion binding]; other site 743722001521 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 743722001522 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 743722001523 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 743722001524 active site 743722001525 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001526 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 743722001527 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 743722001528 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 743722001529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722001530 catalytic residue [active] 743722001531 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 743722001532 Helix-turn-helix domains; Region: HTH; cl00088 743722001533 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722001534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722001535 active site 743722001536 phosphorylation site [posttranslational modification] 743722001537 intermolecular recognition site; other site 743722001538 dimerization interface [polypeptide binding]; other site 743722001539 LytTr DNA-binding domain; Region: LytTR; cl04498 743722001540 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 743722001541 binding surface 743722001542 TPR motif; other site 743722001543 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722001544 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722001545 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 743722001546 binding surface 743722001547 TPR motif; other site 743722001548 Histidine kinase; Region: His_kinase; pfam06580 743722001549 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722001550 Mg2+ binding site [ion binding]; other site 743722001551 G-X-G motif; other site 743722001552 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 743722001553 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 743722001554 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 743722001555 active site 743722001556 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 743722001557 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 743722001558 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 743722001559 active site 743722001560 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 743722001561 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 743722001562 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722001563 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722001564 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 743722001565 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 743722001566 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 743722001567 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 743722001568 Cysteine-rich domain; Region: CCG; pfam02754 743722001569 Cysteine-rich domain; Region: CCG; pfam02754 743722001570 Phosphoesterase family; Region: Phosphoesterase; cl15450 743722001571 LMP repeated region; Region: LMP; pfam04778 743722001572 Phosphoesterase family; Region: Phosphoesterase; cl15450 743722001573 Domain of unknown function (DUF756); Region: DUF756; pfam05506 743722001574 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 743722001575 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 743722001576 NAD(P) binding site [chemical binding]; other site 743722001577 catalytic residues [active] 743722001578 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 743722001579 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 743722001580 catalytic triad [active] 743722001581 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 743722001582 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 743722001583 putative active site [active] 743722001584 metal binding site [ion binding]; metal-binding site 743722001585 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 743722001586 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 743722001587 ethanolamine permease; Region: 2A0305; TIGR00908 743722001588 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 743722001589 Restriction endonuclease; Region: Mrr_cat; cl00516 743722001590 DNA primase, catalytic core; Region: dnaG; TIGR01391 743722001591 CHC2 zinc finger; Region: zf-CHC2; cl15369 743722001592 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 743722001593 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 743722001594 active site 743722001595 metal binding site [ion binding]; metal-binding site 743722001596 interdomain interaction site; other site 743722001597 Mechanosensitive ion channel; Region: MS_channel; pfam00924 743722001598 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 743722001599 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 743722001600 metal binding site [ion binding]; metal-binding site 743722001601 dimer interface [polypeptide binding]; other site 743722001602 Sporulation related domain; Region: SPOR; cl10051 743722001603 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 743722001604 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 743722001605 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 743722001606 nucleotide binding region [chemical binding]; other site 743722001607 ATP-binding site [chemical binding]; other site 743722001608 SEC-C motif; Region: SEC-C; pfam02810 743722001609 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 743722001610 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 743722001611 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 743722001612 active site 743722001613 dimer interface [polypeptide binding]; other site 743722001614 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 743722001615 dimer interface [polypeptide binding]; other site 743722001616 active site 743722001617 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 743722001618 peptide chain release factor 2; Validated; Region: prfB; PRK00578 743722001619 RF-1 domain; Region: RF-1; cl02875 743722001620 RF-1 domain; Region: RF-1; cl02875 743722001621 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 743722001622 trimer interface [polypeptide binding]; other site 743722001623 active site 743722001624 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 743722001625 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 743722001626 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001627 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 743722001628 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722001629 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722001630 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722001631 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722001632 Active site serine [active] 743722001633 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 743722001634 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 743722001635 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 743722001636 FeS/SAM binding site; other site 743722001637 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 743722001638 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722001639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722001640 active site 743722001641 phosphorylation site [posttranslational modification] 743722001642 intermolecular recognition site; other site 743722001643 dimerization interface [polypeptide binding]; other site 743722001644 LytTr DNA-binding domain; Region: LytTR; cl04498 743722001645 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722001646 Histidine kinase; Region: His_kinase; pfam06580 743722001647 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 743722001648 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 743722001649 SpaB C-terminal domain; Region: SpaB_C; cl14828 743722001650 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 743722001651 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 743722001652 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 743722001653 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 743722001654 putative active site [active] 743722001655 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722001656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722001657 Walker A/P-loop; other site 743722001658 ATP binding site [chemical binding]; other site 743722001659 Q-loop/lid; other site 743722001660 ABC transporter signature motif; other site 743722001661 Walker B; other site 743722001662 D-loop; other site 743722001663 H-loop/switch region; other site 743722001664 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 743722001665 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 743722001666 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 743722001667 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 743722001668 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 743722001669 RDD family; Region: RDD; cl00746 743722001670 Integral membrane protein DUF95; Region: DUF95; cl00572 743722001671 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 743722001672 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 743722001673 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 743722001674 MoxR-like ATPases [General function prediction only]; Region: COG0714 743722001675 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 743722001676 Walker A motif; other site 743722001677 ATP binding site [chemical binding]; other site 743722001678 Walker B motif; other site 743722001679 arginine finger; other site 743722001680 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 743722001681 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 743722001682 GH3 auxin-responsive promoter; Region: GH3; cl04006 743722001683 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 743722001684 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 743722001685 Walker A/P-loop; other site 743722001686 ATP binding site [chemical binding]; other site 743722001687 Q-loop/lid; other site 743722001688 ABC transporter signature motif; other site 743722001689 Walker B; other site 743722001690 D-loop; other site 743722001691 H-loop/switch region; other site 743722001692 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 743722001693 DHH family; Region: DHH; pfam01368 743722001694 DHHA1 domain; Region: DHHA1; pfam02272 743722001695 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722001696 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722001697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722001698 active site 743722001699 phosphorylation site [posttranslational modification] 743722001700 intermolecular recognition site; other site 743722001701 dimerization interface [polypeptide binding]; other site 743722001702 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 743722001703 DNA binding residues [nucleotide binding] 743722001704 dimerization interface [polypeptide binding]; other site 743722001705 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722001706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 743722001707 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722001708 ATP binding site [chemical binding]; other site 743722001709 Mg2+ binding site [ion binding]; other site 743722001710 G-X-G motif; other site 743722001711 excinuclease ABC subunit B; Provisional; Region: PRK05298 743722001712 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 743722001713 ATP binding site [chemical binding]; other site 743722001714 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 743722001715 nucleotide binding region [chemical binding]; other site 743722001716 ATP-binding site [chemical binding]; other site 743722001717 Ultra-violet resistance protein B; Region: UvrB; pfam12344 743722001718 UvrB/uvrC motif; Region: UVR; pfam02151 743722001719 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722001720 active site 743722001721 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 743722001722 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 743722001723 motif II; other site 743722001724 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722001725 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722001726 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722001727 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 743722001728 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 743722001729 NADP binding site [chemical binding]; other site 743722001730 homodimer interface [polypeptide binding]; other site 743722001731 active site 743722001732 KduI/IolB family; Region: KduI; cl01508 743722001733 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722001734 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722001735 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722001736 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722001737 DNA binding site [nucleotide binding] 743722001738 domain linker motif; other site 743722001739 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722001740 dimerization interface [polypeptide binding]; other site 743722001741 ligand binding site [chemical binding]; other site 743722001742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001743 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 743722001744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001745 LemA family; Region: LemA; cl00742 743722001746 Repair protein; Region: Repair_PSII; cl01535 743722001747 Repair protein; Region: Repair_PSII; cl01535 743722001748 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 743722001749 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 743722001750 Arginase family; Region: Arginase; cl00306 743722001751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001752 NAD(P) binding site [chemical binding]; other site 743722001753 active site 743722001754 phosphoserine phosphatase SerB; Region: serB; TIGR00338 743722001755 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722001756 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 743722001757 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 743722001758 L-serine binding site [chemical binding]; other site 743722001759 ACT domain interface; other site 743722001760 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 743722001761 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 743722001762 catalytic residues [active] 743722001763 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 743722001764 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 743722001765 homodimer interface [polypeptide binding]; other site 743722001766 substrate-cofactor binding pocket; other site 743722001767 catalytic residue [active] 743722001768 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 743722001769 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 743722001770 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 743722001771 FeS/SAM binding site; other site 743722001772 TRAM domain; Region: TRAM; cl01282 743722001773 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 743722001774 Walker A motif; other site 743722001775 ATP binding site [chemical binding]; other site 743722001776 Walker B motif; other site 743722001777 arginine finger; other site 743722001778 Lipopolysaccharide-assembly; Region: LptE; cl01125 743722001779 Preprotein translocase SecG subunit; Region: SecG; cl09123 743722001780 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 743722001781 oligomerisation interface [polypeptide binding]; other site 743722001782 mobile loop; other site 743722001783 roof hairpin; other site 743722001784 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 743722001785 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 743722001786 ring oligomerisation interface [polypeptide binding]; other site 743722001787 ATP/Mg binding site [chemical binding]; other site 743722001788 stacking interactions; other site 743722001789 hinge regions; other site 743722001790 YtxH-like protein; Region: YtxH; cl02079 743722001791 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 743722001792 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 743722001793 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 743722001794 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 743722001795 substrate binding site [chemical binding]; other site 743722001796 oxyanion hole (OAH) forming residues; other site 743722001797 trimer interface [polypeptide binding]; other site 743722001798 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 743722001799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 743722001800 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 743722001801 GldH lipoprotein; Region: GldH_lipo; cl11905 743722001802 PSP1 C-terminal conserved region; Region: PSP1; cl00770 743722001803 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 743722001804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722001805 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 743722001806 O-methyltransferase; Region: Methyltransf_3; pfam01596 743722001807 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 743722001808 S-adenosylmethionine binding site [chemical binding]; other site 743722001809 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 743722001810 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 743722001811 putative peptidoglycan binding site; other site 743722001812 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 743722001813 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; cl00107 743722001814 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001815 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 743722001816 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 743722001817 amidase catalytic site [active] 743722001818 Zn binding residues [ion binding]; other site 743722001819 substrate binding site [chemical binding]; other site 743722001820 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 743722001821 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722001822 active site 743722001823 HIGH motif; other site 743722001824 nucleotide binding site [chemical binding]; other site 743722001825 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 743722001826 KMSKS motif; other site 743722001827 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 743722001828 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 743722001829 DNA-binding site [nucleotide binding]; DNA binding site 743722001830 RNA-binding motif; other site 743722001831 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 743722001832 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 743722001833 ATP binding site [chemical binding]; other site 743722001834 Mg++ binding site [ion binding]; other site 743722001835 motif III; other site 743722001836 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 743722001837 nucleotide binding region [chemical binding]; other site 743722001838 ATP-binding site [chemical binding]; other site 743722001839 Peptidase family M48; Region: Peptidase_M48; cl12018 743722001840 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 743722001841 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 743722001842 active site 743722001843 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 743722001844 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 743722001845 active site 743722001846 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 743722001847 Amidohydrolase; Region: Amidohydro_4; pfam13147 743722001848 active site 743722001849 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_1; cd08352 743722001850 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722001851 putative metal binding site [ion binding]; other site 743722001852 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 743722001853 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 743722001854 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 743722001855 dimerization interface [polypeptide binding]; other site 743722001856 DPS ferroxidase diiron center [ion binding]; other site 743722001857 ion pore; other site 743722001858 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 743722001859 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722001860 chaperone protein DnaJ; Provisional; Region: PRK14299 743722001861 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 743722001862 HSP70 interaction site [polypeptide binding]; other site 743722001863 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 743722001864 substrate binding site [polypeptide binding]; other site 743722001865 dimer interface [polypeptide binding]; other site 743722001866 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722001867 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 743722001868 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 743722001869 Walker A/P-loop; other site 743722001870 ATP binding site [chemical binding]; other site 743722001871 Q-loop/lid; other site 743722001872 ABC transporter signature motif; other site 743722001873 Walker B; other site 743722001874 D-loop; other site 743722001875 H-loop/switch region; other site 743722001876 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 743722001877 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 743722001878 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 743722001879 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 743722001880 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722001881 active site 743722001882 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 743722001883 putative substrate binding site [chemical binding]; other site 743722001884 active site 743722001885 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722001886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001887 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722001888 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722001889 active site 743722001890 catalytic residues [active] 743722001891 OpgC protein; Region: OpgC_C; cl00792 743722001892 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722001893 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 743722001894 putative catalytic site [active] 743722001895 putative metal binding site [ion binding]; other site 743722001896 putative phosphate binding site [ion binding]; other site 743722001897 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001898 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001899 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001900 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001901 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 743722001902 FecR protein; Region: FecR; pfam04773 743722001903 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722001904 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722001905 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001906 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 743722001907 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722001908 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001909 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 743722001910 DNA binding residues [nucleotide binding] 743722001911 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722001912 FecR protein; Region: FecR; pfam04773 743722001913 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001914 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001915 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 743722001916 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722001917 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 743722001918 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722001919 putative active site [active] 743722001920 putative metal binding site [ion binding]; other site 743722001921 Family description; Region: VCBS; pfam13517 743722001922 Family description; Region: VCBS; pfam13517 743722001923 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 743722001924 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722001925 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722001926 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722001927 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 743722001928 NMT1-like family; Region: NMT1_2; cl15260 743722001929 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 743722001930 dimer interface [polypeptide binding]; other site 743722001931 conserved gate region; other site 743722001932 putative PBP binding loops; other site 743722001933 ABC-ATPase subunit interface; other site 743722001934 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 743722001935 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 743722001936 Walker A/P-loop; other site 743722001937 ATP binding site [chemical binding]; other site 743722001938 Q-loop/lid; other site 743722001939 ABC transporter signature motif; other site 743722001940 Walker B; other site 743722001941 D-loop; other site 743722001942 H-loop/switch region; other site 743722001943 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 743722001944 Uncharacterized conserved protein [Function unknown]; Region: COG2128 743722001945 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722001946 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 743722001947 putative catalytic residues [active] 743722001948 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 743722001949 catalytic residues [active] 743722001950 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722001951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722001952 Uncharacterized conserved protein [Function unknown]; Region: COG2128 743722001953 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722001954 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 743722001955 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 743722001956 active site 743722001957 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722001958 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722001959 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 743722001960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722001961 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 743722001962 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722001963 FtsX-like permease family; Region: FtsX; cl15850 743722001964 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 743722001965 Helix-turn-helix domains; Region: HTH; cl00088 743722001966 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722001967 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 743722001968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722001969 Helix-turn-helix domains; Region: HTH; cl00088 743722001970 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722001971 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 743722001972 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 743722001973 PA/protease or protease-like domain interface [polypeptide binding]; other site 743722001974 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 743722001975 metal binding site [ion binding]; metal-binding site 743722001976 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 743722001977 homotrimer interaction site [polypeptide binding]; other site 743722001978 putative active site [active] 743722001979 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722001980 Sulfatase; Region: Sulfatase; cl10460 743722001981 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 743722001982 active site 743722001983 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 743722001984 putative catalytic site [active] 743722001985 putative metal binding site [ion binding]; other site 743722001986 putative phosphate binding site [ion binding]; other site 743722001987 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 743722001988 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001989 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722001990 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722001991 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722001992 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722001993 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 743722001994 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 743722001995 FecR protein; Region: FecR; pfam04773 743722001996 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722001997 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722001998 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 743722001999 DNA binding residues [nucleotide binding] 743722002000 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002001 FtsX-like permease family; Region: FtsX; cl15850 743722002002 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 743722002003 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002004 FtsX-like permease family; Region: FtsX; cl15850 743722002005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002006 AAA domain; Region: AAA_22; pfam13401 743722002007 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 743722002008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002009 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722002010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002011 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 743722002012 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722002013 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 743722002014 Walker A motif; other site 743722002015 ATP binding site [chemical binding]; other site 743722002016 Walker B motif; other site 743722002017 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 743722002018 Integrase core domain; Region: rve; cl01316 743722002019 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 743722002020 Histidine kinase; Region: His_kinase; pfam06580 743722002021 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722002022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002023 active site 743722002024 phosphorylation site [posttranslational modification] 743722002025 intermolecular recognition site; other site 743722002026 dimerization interface [polypeptide binding]; other site 743722002027 LytTr DNA-binding domain; Region: LytTR; cl04498 743722002028 Helix-turn-helix domains; Region: HTH; cl00088 743722002029 Integrase core domain; Region: rve; cl01316 743722002030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 743722002031 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722002032 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 743722002033 Walker A motif; other site 743722002034 ATP binding site [chemical binding]; other site 743722002035 Walker B motif; other site 743722002036 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 743722002037 catalytic residues [active] 743722002038 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 743722002039 Helix-turn-helix domains; Region: HTH; cl00088 743722002040 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 743722002041 S-adenosylmethionine binding site [chemical binding]; other site 743722002042 nucleosidase; Provisional; Region: PRK05634 743722002043 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 743722002044 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722002045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002046 active site 743722002047 phosphorylation site [posttranslational modification] 743722002048 intermolecular recognition site; other site 743722002049 dimerization interface [polypeptide binding]; other site 743722002050 LytTr DNA-binding domain; Region: LytTR; cl04498 743722002051 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722002052 Histidine kinase; Region: His_kinase; pfam06580 743722002053 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 743722002054 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 743722002055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002056 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722002057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002058 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 743722002059 NmrA-like family; Region: NmrA; pfam05368 743722002060 NAD(P) binding site [chemical binding]; other site 743722002061 active site lysine 743722002062 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722002063 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 743722002064 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 743722002065 Cupin domain; Region: Cupin_2; cl09118 743722002066 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722002067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002068 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722002069 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 743722002070 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 743722002071 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 743722002072 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 743722002073 Protein of unknown function (DUF2711); Region: DUF2711; pfam10924 743722002074 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722002075 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 743722002076 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722002077 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722002078 Low affinity iron permease; Region: Iron_permease; cl12096 743722002079 Helix-turn-helix domains; Region: HTH; cl00088 743722002080 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 743722002081 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722002082 AAA domain; Region: AAA_18; pfam13238 743722002083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002084 cytidylate kinase; Provisional; Region: cmk; PRK00023 743722002085 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 743722002086 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 743722002087 cofactor binding site; other site 743722002088 DNA binding site [nucleotide binding] 743722002089 substrate interaction site [chemical binding]; other site 743722002090 Pirin-related protein [General function prediction only]; Region: COG1741 743722002091 Cupin domain; Region: Cupin_2; cl09118 743722002092 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 743722002093 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 743722002094 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 743722002095 potential catalytic triad [active] 743722002096 conserved cys residue [active] 743722002097 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 743722002098 ligand binding site [chemical binding]; other site 743722002099 flexible hinge region; other site 743722002100 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 743722002101 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722002102 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722002103 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722002104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002105 Walker A/P-loop; other site 743722002106 ATP binding site [chemical binding]; other site 743722002107 Q-loop/lid; other site 743722002108 ABC transporter signature motif; other site 743722002109 Walker B; other site 743722002110 D-loop; other site 743722002111 H-loop/switch region; other site 743722002112 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722002113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002114 short chain dehydrogenase; Provisional; Region: PRK08263 743722002115 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722002116 NADP binding site [chemical binding]; other site 743722002117 active site 743722002118 steroid binding site; other site 743722002119 OpgC protein; Region: OpgC_C; cl00792 743722002120 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722002121 Protein of unknown function (DUF419); Region: DUF419; cl15265 743722002122 Chorismate mutase type II; Region: CM_2; cl00693 743722002123 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 743722002124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722002126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002127 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_16; cd07263 743722002128 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722002129 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 743722002130 S-adenosylmethionine binding site [chemical binding]; other site 743722002131 Cupin domain; Region: Cupin_2; cl09118 743722002132 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722002133 short chain dehydrogenase; Provisional; Region: PRK06180 743722002134 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722002135 NADP binding site [chemical binding]; other site 743722002136 active site 743722002137 steroid binding site; other site 743722002138 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 743722002139 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 743722002140 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 743722002141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 743722002142 Right handed beta helix region; Region: Beta_helix; pfam13229 743722002143 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722002144 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 743722002145 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002146 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722002147 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 743722002148 N-terminal plug; other site 743722002149 ligand-binding site [chemical binding]; other site 743722002150 LysE type translocator; Region: LysE; cl00565 743722002151 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722002152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002153 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002154 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002155 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002156 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002157 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002158 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002159 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 743722002160 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722002161 active site 743722002162 MFS/sugar transport protein; Region: MFS_2; pfam13347 743722002163 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 743722002164 putative substrate translocation pore; other site 743722002165 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 743722002166 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 743722002167 putative active cleft [active] 743722002168 dimerization interface [polypeptide binding]; other site 743722002169 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 743722002170 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 743722002171 putative hydrophobic ligand binding site [chemical binding]; other site 743722002172 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 743722002173 ligand binding site [chemical binding]; other site 743722002174 flexible hinge region; other site 743722002175 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 743722002176 classical (c) SDRs; Region: SDR_c; cd05233 743722002177 NAD(P) binding site [chemical binding]; other site 743722002178 active site 743722002179 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722002180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722002181 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 743722002182 DNA binding residues [nucleotide binding] 743722002183 FecR protein; Region: FecR; pfam04773 743722002184 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722002185 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002186 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002187 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002188 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002189 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 743722002190 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002191 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002192 Sulfatase; Region: Sulfatase; cl10460 743722002193 choline-sulfatase; Region: chol_sulfatase; TIGR03417 743722002194 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722002195 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722002196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002197 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722002198 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 743722002199 active site 743722002200 catalytic tetrad [active] 743722002201 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 743722002202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722002203 Coenzyme A binding pocket [chemical binding]; other site 743722002204 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722002205 DinB superfamily; Region: DinB_2; pfam12867 743722002206 Nitronate monooxygenase; Region: NMO; pfam03060 743722002207 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 743722002208 FMN binding site [chemical binding]; other site 743722002209 substrate binding site [chemical binding]; other site 743722002210 putative catalytic residue [active] 743722002211 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 743722002212 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722002213 Transposase [DNA replication, recombination, and repair]; Region: COG5433 743722002214 Transposase [DNA replication, recombination, and repair]; Region: COG5433 743722002215 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 743722002216 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 743722002217 putative substrate translocation pore; other site 743722002218 Leucine carboxyl methyltransferase; Region: LCM; cl01306 743722002219 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722002220 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002221 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722002222 Sulfatase; Region: Sulfatase; cl10460 743722002223 NIPSNAP; Region: NIPSNAP; pfam07978 743722002224 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 743722002225 dimerization interface [polypeptide binding]; other site 743722002226 putative DNA binding site [nucleotide binding]; other site 743722002227 putative Zn2+ binding site [ion binding]; other site 743722002228 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 743722002229 hydrophobic ligand binding site; other site 743722002230 DoxX; Region: DoxX; cl00976 743722002231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 743722002232 Protein of unknown function (DUF419); Region: DUF419; cl15265 743722002233 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 743722002234 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 743722002235 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 743722002236 additional DNA contacts [nucleotide binding]; other site 743722002237 mismatch recognition site; other site 743722002238 active site 743722002239 zinc binding site [ion binding]; other site 743722002240 DNA intercalation site [nucleotide binding]; other site 743722002241 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722002242 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002243 FtsX-like permease family; Region: FtsX; cl15850 743722002244 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002245 FtsX-like permease family; Region: FtsX; cl15850 743722002246 Uncharacterized conserved protein [Function unknown]; Region: COG2898 743722002247 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722002248 Histidine kinase; Region: His_kinase; pfam06580 743722002249 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722002250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002251 active site 743722002252 phosphorylation site [posttranslational modification] 743722002253 intermolecular recognition site; other site 743722002254 dimerization interface [polypeptide binding]; other site 743722002255 LytTr DNA-binding domain; Region: LytTR; cl04498 743722002256 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 743722002257 putative active site [active] 743722002258 catalytic site [active] 743722002259 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 743722002260 dimer interface [polypeptide binding]; other site 743722002261 Alkaline phosphatase homologues; Region: alkPPc; smart00098 743722002262 active site 743722002263 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722002264 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002265 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002266 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002267 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002268 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 743722002269 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722002270 FecR protein; Region: FecR; pfam04773 743722002271 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722002272 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722002273 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 743722002274 Helix-turn-helix domains; Region: HTH; cl00088 743722002275 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722002276 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 743722002277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002278 Walker A/P-loop; other site 743722002279 ATP binding site [chemical binding]; other site 743722002280 ABC transporter signature motif; other site 743722002281 Walker B; other site 743722002282 D-loop; other site 743722002283 H-loop/switch region; other site 743722002284 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 743722002285 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 743722002286 active site 743722002287 catalytic residues [active] 743722002288 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722002289 Two component regulator propeller; Region: Reg_prop; pfam07494 743722002290 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722002291 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 743722002292 Sodium:solute symporter family; Region: SSF; cl00456 743722002293 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 743722002294 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 743722002295 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 743722002296 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 743722002297 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 743722002298 inhibitor site; inhibition site 743722002299 active site 743722002300 dimer interface [polypeptide binding]; other site 743722002301 catalytic residue [active] 743722002302 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 743722002303 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 743722002304 active site 743722002305 NAD binding site [chemical binding]; other site 743722002306 metal binding site [ion binding]; metal-binding site 743722002307 Cupin domain; Region: Cupin_2; cl09118 743722002308 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722002309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002310 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 743722002311 putative amphipathic alpha helix; other site 743722002312 FAD dependent oxidoreductase; Region: DAO; pfam01266 743722002313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002314 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 743722002315 Proline racemase; Region: Pro_racemase; pfam05544 743722002316 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 743722002317 dimer interface [polypeptide binding]; other site 743722002318 NADP binding site [chemical binding]; other site 743722002319 catalytic residues [active] 743722002320 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 743722002321 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 743722002322 inhibitor site; inhibition site 743722002323 active site 743722002324 dimer interface [polypeptide binding]; other site 743722002325 catalytic residue [active] 743722002326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722002328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722002329 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 743722002330 proline aminopeptidase P II; Provisional; Region: PRK10879 743722002331 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 743722002332 active site 743722002333 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 743722002334 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 743722002335 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 743722002336 Zn binding site [ion binding]; other site 743722002337 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 743722002338 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722002339 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002340 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002341 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002342 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002343 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722002344 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722002345 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 743722002346 DNA binding residues [nucleotide binding] 743722002347 FecR protein; Region: FecR; pfam04773 743722002348 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722002349 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002350 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002351 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 743722002352 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002353 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 743722002354 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722002355 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722002356 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 743722002357 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 743722002358 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722002359 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 743722002360 protein binding site [polypeptide binding]; other site 743722002361 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 743722002362 Domain interface; other site 743722002363 Peptide binding site; other site 743722002364 Active site tetrad [active] 743722002365 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002366 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002367 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002368 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 743722002369 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 743722002370 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722002371 active site 743722002372 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722002373 sugar binding site [chemical binding]; other site 743722002374 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 743722002375 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002376 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002377 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002378 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002379 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 743722002380 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002381 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722002382 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 743722002383 N-terminal plug; other site 743722002384 ligand-binding site [chemical binding]; other site 743722002385 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 743722002386 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 743722002387 putative substrate translocation pore; other site 743722002388 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 743722002389 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002390 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002391 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002392 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 743722002393 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 743722002394 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 743722002395 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 743722002396 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 743722002397 L-type amino acid transporter; Region: 2A0308; TIGR00911 743722002398 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 743722002399 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722002400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002401 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722002402 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 743722002403 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 743722002404 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 743722002405 active site 743722002406 catalytic residues [active] 743722002407 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722002408 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 743722002409 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 743722002410 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 743722002411 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 743722002412 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 743722002413 nudix motif; other site 743722002414 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 743722002415 ribulokinase; Provisional; Region: PRK04123 743722002416 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 743722002417 putative N- and C-terminal domain interface [polypeptide binding]; other site 743722002418 putative active site [active] 743722002419 putative MgATP binding site [chemical binding]; other site 743722002420 catalytic site [active] 743722002421 metal binding site [ion binding]; metal-binding site 743722002422 carbohydrate binding site [chemical binding]; other site 743722002423 homodimer interface [polypeptide binding]; other site 743722002424 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 743722002425 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 743722002426 intersubunit interface [polypeptide binding]; other site 743722002427 active site 743722002428 Zn2+ binding site [ion binding]; other site 743722002429 L-arabinose isomerase; Provisional; Region: PRK02929 743722002430 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 743722002431 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 743722002432 trimer interface [polypeptide binding]; other site 743722002433 putative substrate binding site [chemical binding]; other site 743722002434 putative metal binding site [ion binding]; other site 743722002435 putative transporter; Provisional; Region: PRK10484 743722002436 Sodium:solute symporter family; Region: SSF; cl00456 743722002437 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722002438 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 743722002439 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 743722002440 Ligand Binding Site [chemical binding]; other site 743722002441 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 743722002442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002443 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 743722002444 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 743722002445 acetylornithine aminotransferase; Provisional; Region: PRK02627 743722002446 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 743722002447 inhibitor-cofactor binding pocket; inhibition site 743722002448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722002449 catalytic residue [active] 743722002450 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 743722002451 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 743722002452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002453 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 743722002454 nucleotide binding site [chemical binding]; other site 743722002455 N-acetyl-L-glutamate binding site [chemical binding]; other site 743722002456 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 743722002457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002458 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 743722002459 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 743722002460 metal binding site [ion binding]; metal-binding site 743722002461 dimer interface [polypeptide binding]; other site 743722002462 argininosuccinate lyase; Provisional; Region: PRK00855 743722002463 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 743722002464 active sites [active] 743722002465 tetramer interface [polypeptide binding]; other site 743722002466 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 743722002467 putative nucleotide binding site [chemical binding]; other site 743722002468 uridine monophosphate binding site [chemical binding]; other site 743722002469 homohexameric interface [polypeptide binding]; other site 743722002470 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 743722002471 S-adenosylmethionine binding site [chemical binding]; other site 743722002472 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 743722002473 HemN C-terminal domain; Region: HemN_C; pfam06969 743722002474 short chain dehydrogenase; Provisional; Region: PRK06181 743722002475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002476 NAD(P) binding site [chemical binding]; other site 743722002477 active site 743722002478 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 743722002479 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 743722002480 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722002481 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 743722002482 NAD binding site [chemical binding]; other site 743722002483 putative substrate binding site 2 [chemical binding]; other site 743722002484 putative substrate binding site 1 [chemical binding]; other site 743722002485 active site 743722002486 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 743722002487 UDP-glucose 4-epimerase; Region: PLN02240 743722002488 NAD binding site [chemical binding]; other site 743722002489 homodimer interface [polypeptide binding]; other site 743722002490 active site 743722002491 substrate binding site [chemical binding]; other site 743722002492 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 743722002493 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 743722002494 NAD binding site [chemical binding]; other site 743722002495 substrate binding site [chemical binding]; other site 743722002496 homodimer interface [polypeptide binding]; other site 743722002497 active site 743722002498 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 743722002499 Rhomboid family; Region: Rhomboid; cl11446 743722002500 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 743722002501 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 743722002502 FeS/SAM binding site; other site 743722002503 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 743722002504 FtsH Extracellular; Region: FtsH_ext; pfam06480 743722002505 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 743722002506 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 743722002507 Walker A motif; other site 743722002508 ATP binding site [chemical binding]; other site 743722002509 Walker B motif; other site 743722002510 arginine finger; other site 743722002511 Peptidase family M41; Region: Peptidase_M41; pfam01434 743722002512 Oligomerisation domain; Region: Oligomerisation; cl00519 743722002513 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 743722002514 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 743722002515 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 743722002516 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 743722002517 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722002518 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 743722002519 active site 743722002520 ADP/pyrophosphate binding site [chemical binding]; other site 743722002521 dimerization interface [polypeptide binding]; other site 743722002522 allosteric effector site; other site 743722002523 fructose-1,6-bisphosphate binding site; other site 743722002524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 743722002525 Helix-turn-helix domains; Region: HTH; cl00088 743722002526 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 743722002527 putative dimerization interface [polypeptide binding]; other site 743722002528 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 743722002529 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 743722002530 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 743722002531 NAD(P) binding site [chemical binding]; other site 743722002532 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 743722002533 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 743722002534 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 743722002535 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 743722002536 nucleoside/Zn binding site; other site 743722002537 dimer interface [polypeptide binding]; other site 743722002538 catalytic motif [active] 743722002539 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 743722002540 dimer interface [polypeptide binding]; other site 743722002541 putative tRNA-binding site [nucleotide binding]; other site 743722002542 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002543 FtsX-like permease family; Region: FtsX; cl15850 743722002544 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 743722002545 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 743722002546 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722002547 putative active site [active] 743722002548 putative metal binding site [ion binding]; other site 743722002549 ferrochelatase; Reviewed; Region: hemH; PRK00035 743722002550 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 743722002551 C-terminal domain interface [polypeptide binding]; other site 743722002552 active site 743722002553 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 743722002554 active site 743722002555 N-terminal domain interface [polypeptide binding]; other site 743722002556 LytB protein; Region: LYTB; cl00507 743722002557 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 743722002558 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 743722002559 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722002560 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 743722002561 putative catalytic site [active] 743722002562 putative metal binding site [ion binding]; other site 743722002563 putative phosphate binding site [ion binding]; other site 743722002564 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 743722002565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002566 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 743722002567 FlgD Ig-like domain; Region: FlgD_ig; cl15790 743722002568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002569 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722002570 NAD(P) binding site [chemical binding]; other site 743722002571 active site 743722002572 Transcriptional regulator; Region: Transcrip_reg; cl00361 743722002573 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 743722002574 active site 743722002575 dimer interface [polypeptide binding]; other site 743722002576 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 743722002577 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 743722002578 ATP binding site [chemical binding]; other site 743722002579 putative Mg++ binding site [ion binding]; other site 743722002580 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 743722002581 nucleotide binding region [chemical binding]; other site 743722002582 ATP-binding site [chemical binding]; other site 743722002583 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 743722002584 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 743722002585 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 743722002586 active site 743722002587 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 743722002588 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; cl16911 743722002589 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 743722002590 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 743722002591 PA/protease or protease-like domain interface [polypeptide binding]; other site 743722002592 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 743722002593 metal binding site [ion binding]; metal-binding site 743722002594 PUA domain; Region: PUA; cl00607 743722002595 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 743722002596 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 743722002597 putative RNA binding site [nucleotide binding]; other site 743722002598 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 743722002599 S-adenosylmethionine binding site [chemical binding]; other site 743722002600 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722002601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722002602 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 743722002603 DNA binding residues [nucleotide binding] 743722002604 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 743722002605 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 743722002606 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 743722002607 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 743722002608 SpaB C-terminal domain; Region: SpaB_C; cl14828 743722002609 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722002610 Histidine kinase; Region: His_kinase; pfam06580 743722002611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002612 active site 743722002613 phosphorylation site [posttranslational modification] 743722002614 intermolecular recognition site; other site 743722002615 dimerization interface [polypeptide binding]; other site 743722002616 LytTr DNA-binding domain; Region: LytTR; cl04498 743722002617 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002618 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002619 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002620 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 743722002621 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 743722002622 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002623 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002624 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002625 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002626 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 743722002627 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722002628 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722002629 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002630 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002631 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 743722002632 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 743722002633 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722002634 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722002635 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722002636 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002637 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002638 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722002639 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 743722002640 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 743722002641 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 743722002642 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 743722002643 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 743722002644 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722002645 ATP-dependent DNA ligase; Validated; Region: PRK09247 743722002646 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 743722002647 active site 743722002648 DNA binding site [nucleotide binding] 743722002649 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 743722002650 DNA binding site [nucleotide binding] 743722002651 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 743722002652 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 743722002653 ATP binding site [chemical binding]; other site 743722002654 putative Mg++ binding site [ion binding]; other site 743722002655 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 743722002656 nucleotide binding region [chemical binding]; other site 743722002657 ATP-binding site [chemical binding]; other site 743722002658 DEAD/H associated; Region: DEAD_assoc; pfam08494 743722002659 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 743722002660 putative active site [active] 743722002661 putative metal binding site [ion binding]; other site 743722002662 Response regulator receiver domain; Region: Response_reg; pfam00072 743722002663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002664 active site 743722002665 phosphorylation site [posttranslational modification] 743722002666 intermolecular recognition site; other site 743722002667 dimerization interface [polypeptide binding]; other site 743722002668 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 743722002669 dimer interface [polypeptide binding]; other site 743722002670 phosphorylation site [posttranslational modification] 743722002671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722002672 ATP binding site [chemical binding]; other site 743722002673 Mg2+ binding site [ion binding]; other site 743722002674 G-X-G motif; other site 743722002675 Nitrate and nitrite sensing; Region: NIT; pfam08376 743722002676 GAF domain; Region: GAF_2; pfam13185 743722002677 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 743722002678 dimer interface [polypeptide binding]; other site 743722002679 phosphorylation site [posttranslational modification] 743722002680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722002681 ATP binding site [chemical binding]; other site 743722002682 Mg2+ binding site [ion binding]; other site 743722002683 G-X-G motif; other site 743722002684 Response regulator receiver domain; Region: Response_reg; pfam00072 743722002685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002686 active site 743722002687 phosphorylation site [posttranslational modification] 743722002688 intermolecular recognition site; other site 743722002689 dimerization interface [polypeptide binding]; other site 743722002690 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 743722002691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002692 active site 743722002693 phosphorylation site [posttranslational modification] 743722002694 intermolecular recognition site; other site 743722002695 Response regulator receiver domain; Region: Response_reg; pfam00072 743722002696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002697 active site 743722002698 phosphorylation site [posttranslational modification] 743722002699 intermolecular recognition site; other site 743722002700 dimerization interface [polypeptide binding]; other site 743722002701 Response regulator receiver domain; Region: Response_reg; pfam00072 743722002702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002703 active site 743722002704 phosphorylation site [posttranslational modification] 743722002705 intermolecular recognition site; other site 743722002706 dimerization interface [polypeptide binding]; other site 743722002707 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 743722002708 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 743722002709 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; cl16911 743722002710 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 743722002711 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 743722002712 substrate binding pocket [chemical binding]; other site 743722002713 chain length determination region; other site 743722002714 substrate-Mg2+ binding site; other site 743722002715 catalytic residues [active] 743722002716 aspartate-rich region 1; other site 743722002717 active site lid residues [active] 743722002718 aspartate-rich region 2; other site 743722002719 Integral membrane protein TerC family; Region: TerC; cl10468 743722002720 AAA domain; Region: AAA_28; pfam13521 743722002721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002722 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 743722002723 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 743722002724 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 743722002725 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722002726 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 743722002727 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 743722002728 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 743722002729 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 743722002730 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722002731 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722002732 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722002733 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722002734 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 743722002735 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 743722002736 DNA repair protein RadA; Provisional; Region: PRK11823 743722002737 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 743722002738 Walker A motif/ATP binding site; other site 743722002739 ATP binding site [chemical binding]; other site 743722002740 Walker B motif; other site 743722002741 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 743722002742 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 743722002743 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 743722002744 homodimer interface [polypeptide binding]; other site 743722002745 oligonucleotide binding site [chemical binding]; other site 743722002746 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 743722002747 TPR motif; other site 743722002748 TPR repeat; Region: TPR_11; pfam13414 743722002749 binding surface 743722002750 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 743722002751 IHF dimer interface [polypeptide binding]; other site 743722002752 IHF - DNA interface [nucleotide binding]; other site 743722002753 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 743722002754 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 743722002755 minor groove reading motif; other site 743722002756 helix-hairpin-helix signature motif; other site 743722002757 substrate binding pocket [chemical binding]; other site 743722002758 active site 743722002759 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 743722002760 DNA binding and oxoG recognition site [nucleotide binding] 743722002761 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 743722002762 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 743722002763 dimer interface [polypeptide binding]; other site 743722002764 ssDNA binding site [nucleotide binding]; other site 743722002765 tetramer (dimer of dimers) interface [polypeptide binding]; other site 743722002766 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 743722002767 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 743722002768 dimer interface [polypeptide binding]; other site 743722002769 anticodon binding site; other site 743722002770 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 743722002771 homodimer interface [polypeptide binding]; other site 743722002772 motif 1; other site 743722002773 active site 743722002774 motif 2; other site 743722002775 GAD domain; Region: GAD; pfam02938 743722002776 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 743722002777 motif 3; other site 743722002778 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 743722002779 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 743722002780 TPP-binding site; other site 743722002781 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 743722002782 PYR/PP interface [polypeptide binding]; other site 743722002783 dimer interface [polypeptide binding]; other site 743722002784 TPP binding site [chemical binding]; other site 743722002785 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 743722002786 ScpA/B protein; Region: ScpA_ScpB; cl00598 743722002787 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 743722002788 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 743722002789 dimer interface [polypeptide binding]; other site 743722002790 active site 743722002791 glycine-pyridoxal phosphate binding site [chemical binding]; other site 743722002792 folate binding site [chemical binding]; other site 743722002793 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 743722002794 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722002795 active site 743722002796 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 743722002797 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 743722002798 FeS/SAM binding site; other site 743722002799 chlorohydrolase; Provisional; Region: PRK08418 743722002800 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 743722002801 active site 743722002802 Acylphosphatase; Region: Acylphosphatase; cl00551 743722002803 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 743722002804 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 743722002805 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 743722002806 binding surface 743722002807 TPR motif; other site 743722002808 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 743722002809 TPR motif; other site 743722002810 binding surface 743722002811 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 743722002812 binding surface 743722002813 TPR repeat; Region: TPR_11; pfam13414 743722002814 TPR motif; other site 743722002815 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 743722002816 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 743722002817 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 743722002818 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 743722002819 N-acetyl-D-glucosamine binding site [chemical binding]; other site 743722002820 catalytic residue [active] 743722002821 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 743722002822 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 743722002823 putative peptidoglycan binding site; other site 743722002824 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 743722002825 putative peptidoglycan binding site; other site 743722002826 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 743722002827 NlpC/P60 family; Region: NLPC_P60; cl11438 743722002828 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 743722002829 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 743722002830 tetramer interface [polypeptide binding]; other site 743722002831 TPP-binding site [chemical binding]; other site 743722002832 heterodimer interface [polypeptide binding]; other site 743722002833 phosphorylation loop region [posttranslational modification] 743722002834 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 743722002835 E3 interaction surface; other site 743722002836 lipoyl attachment site [posttranslational modification]; other site 743722002837 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 743722002838 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 743722002839 E3 interaction surface; other site 743722002840 lipoyl attachment site [posttranslational modification]; other site 743722002841 e3 binding domain; Region: E3_binding; pfam02817 743722002842 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 743722002843 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 743722002844 Sulfatase; Region: Sulfatase; cl10460 743722002845 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 743722002846 Sulfatase; Region: Sulfatase; cl10460 743722002847 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 743722002848 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 743722002849 metal binding site [ion binding]; metal-binding site 743722002850 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722002851 active site residue [active] 743722002852 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722002853 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722002854 ligand binding site [chemical binding]; other site 743722002855 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 743722002856 homotrimer interaction site [polypeptide binding]; other site 743722002857 putative active site [active] 743722002858 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 743722002859 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 743722002860 generic binding surface II; other site 743722002861 ssDNA binding site; other site 743722002862 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 743722002863 ATP binding site [chemical binding]; other site 743722002864 putative Mg++ binding site [ion binding]; other site 743722002865 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 743722002866 nucleotide binding region [chemical binding]; other site 743722002867 ATP-binding site [chemical binding]; other site 743722002868 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 743722002869 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 743722002870 HflX GTPase family; Region: HflX; cd01878 743722002871 G1 box; other site 743722002872 GTP/Mg2+ binding site [chemical binding]; other site 743722002873 Switch I region; other site 743722002874 G2 box; other site 743722002875 G3 box; other site 743722002876 Switch II region; other site 743722002877 G4 box; other site 743722002878 G5 box; other site 743722002879 Ribosome-binding factor A; Region: RBFA; cl00542 743722002880 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722002881 Predicted membrane protein [Function unknown]; Region: COG2860 743722002882 UPF0126 domain; Region: UPF0126; pfam03458 743722002883 UPF0126 domain; Region: UPF0126; pfam03458 743722002884 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 743722002885 active site 743722002886 catalytic residues [active] 743722002887 metal binding site [ion binding]; metal-binding site 743722002888 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722002889 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 743722002890 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722002891 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002892 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 743722002893 RNA/DNA hybrid binding site [nucleotide binding]; other site 743722002894 active site 743722002895 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 743722002896 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 743722002897 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 743722002898 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 743722002899 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 743722002900 Low molecular weight phosphatase family; Region: LMWPc; cd00115 743722002901 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 743722002902 active site 743722002903 sensory histidine kinase AtoS; Provisional; Region: PRK11360 743722002904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722002905 ATP binding site [chemical binding]; other site 743722002906 Mg2+ binding site [ion binding]; other site 743722002907 G-X-G motif; other site 743722002908 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 743722002909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722002910 active site 743722002911 phosphorylation site [posttranslational modification] 743722002912 intermolecular recognition site; other site 743722002913 dimerization interface [polypeptide binding]; other site 743722002914 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 743722002915 Walker A motif; other site 743722002916 ATP binding site [chemical binding]; other site 743722002917 Walker B motif; other site 743722002918 arginine finger; other site 743722002919 Helix-turn-helix domains; Region: HTH; cl00088 743722002920 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722002921 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 743722002922 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 743722002923 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 743722002924 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 743722002925 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 743722002926 Walker A/P-loop; other site 743722002927 ATP binding site [chemical binding]; other site 743722002928 Q-loop/lid; other site 743722002929 ABC transporter signature motif; other site 743722002930 Walker B; other site 743722002931 D-loop; other site 743722002932 H-loop/switch region; other site 743722002933 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002934 FtsX-like permease family; Region: FtsX; cl15850 743722002935 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002936 FtsX-like permease family; Region: FtsX; cl15850 743722002937 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002938 FtsX-like permease family; Region: FtsX; cl15850 743722002939 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002940 FtsX-like permease family; Region: FtsX; cl15850 743722002941 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002942 FtsX-like permease family; Region: FtsX; cl15850 743722002943 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002944 FtsX-like permease family; Region: FtsX; cl15850 743722002945 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002946 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722002947 FtsX-like permease family; Region: FtsX; cl15850 743722002948 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002949 FtsX-like permease family; Region: FtsX; cl15850 743722002950 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 743722002951 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 743722002952 catalytic core [active] 743722002953 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 743722002954 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 743722002955 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 743722002956 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 743722002957 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722002958 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722002959 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 743722002960 N-terminal plug; other site 743722002961 ligand-binding site [chemical binding]; other site 743722002962 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 743722002963 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722002964 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 743722002965 metal ion-dependent adhesion site (MIDAS); other site 743722002966 putative oxidoreductase; Provisional; Region: PRK11579 743722002967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002968 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722002969 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 743722002970 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 743722002971 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 743722002972 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 743722002973 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 743722002974 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722002975 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 743722002976 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722002977 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722002978 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 743722002979 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 743722002980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722002981 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 743722002982 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722002983 putative substrate translocation pore; other site 743722002984 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 743722002985 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 743722002986 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 743722002987 Surface antigen; Region: Bac_surface_Ag; cl03097 743722002988 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 743722002989 non-specific DNA binding site [nucleotide binding]; other site 743722002990 salt bridge; other site 743722002991 sequence-specific DNA binding site [nucleotide binding]; other site 743722002992 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002993 FtsX-like permease family; Region: FtsX; cl15850 743722002994 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002995 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 743722002996 FtsX-like permease family; Region: FtsX; cl15850 743722002997 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722002998 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722002999 FtsX-like permease family; Region: FtsX; cl15850 743722003000 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003001 FtsX-like permease family; Region: FtsX; cl15850 743722003002 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003003 FtsX-like permease family; Region: FtsX; cl15850 743722003004 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 743722003005 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003006 FtsX-like permease family; Region: FtsX; cl15850 743722003007 OpgC protein; Region: OpgC_C; cl00792 743722003008 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 743722003009 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722003010 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722003011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722003012 TolB amino-terminal domain; Region: TolB_N; cl00639 743722003013 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 743722003014 binding surface 743722003015 TPR motif; other site 743722003016 TPR repeat; Region: TPR_11; pfam13414 743722003017 TPR repeat; Region: TPR_11; pfam13414 743722003018 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 743722003019 binding surface 743722003020 TPR motif; other site 743722003021 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 743722003022 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722003023 Protein of unknown function DUF86; Region: DUF86; cl01031 743722003024 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 743722003025 active site 743722003026 NTP binding site [chemical binding]; other site 743722003027 metal binding triad [ion binding]; metal-binding site 743722003028 antibiotic binding site [chemical binding]; other site 743722003029 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722003030 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003031 FtsX-like permease family; Region: FtsX; cl15850 743722003032 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003033 FtsX-like permease family; Region: FtsX; cl15850 743722003034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003035 FtsX-like permease family; Region: FtsX; cl15850 743722003036 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003037 FtsX-like permease family; Region: FtsX; cl15850 743722003038 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 743722003039 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 743722003040 ATP binding site [chemical binding]; other site 743722003041 putative Mg++ binding site [ion binding]; other site 743722003042 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 743722003043 nucleotide binding region [chemical binding]; other site 743722003044 ATP-binding site [chemical binding]; other site 743722003045 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003046 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722003047 FtsX-like permease family; Region: FtsX; cl15850 743722003048 FtsX-like permease family; Region: FtsX; cl15850 743722003049 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003050 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 743722003051 HEPN domain; Region: HEPN; cl00824 743722003052 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 743722003053 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 743722003054 PhnA protein; Region: PhnA; pfam03831 743722003055 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 743722003056 Interdomain contacts; other site 743722003057 Cytokine receptor motif; other site 743722003058 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722003059 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003060 FtsX-like permease family; Region: FtsX; cl15850 743722003061 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003062 FtsX-like permease family; Region: FtsX; cl15850 743722003063 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 743722003064 MatE; Region: MatE; cl10513 743722003065 MatE; Region: MatE; cl10513 743722003066 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 743722003067 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 743722003068 putative NAD(P) binding site [chemical binding]; other site 743722003069 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003070 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722003071 FtsX-like permease family; Region: FtsX; cl15850 743722003072 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003073 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003074 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 743722003075 FtsX-like permease family; Region: FtsX; cl15850 743722003076 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 743722003077 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003078 FtsX-like permease family; Region: FtsX; cl15850 743722003079 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003080 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722003081 FtsX-like permease family; Region: FtsX; cl15850 743722003082 FtsX-like permease family; Region: FtsX; cl15850 743722003083 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003084 FtsX-like permease family; Region: FtsX; cl15850 743722003085 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 743722003086 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003087 FtsX-like permease family; Region: FtsX; cl15850 743722003088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 743722003089 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 743722003090 Walker A/P-loop; other site 743722003091 ATP binding site [chemical binding]; other site 743722003092 Q-loop/lid; other site 743722003093 ABC transporter signature motif; other site 743722003094 Walker B; other site 743722003095 D-loop; other site 743722003096 H-loop/switch region; other site 743722003097 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 743722003098 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 743722003099 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722003100 Uncharacterized conserved protein [Function unknown]; Region: COG1624 743722003101 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 743722003102 Disulphide isomerase; Region: Disulph_isomer; pfam06491 743722003103 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 743722003104 Helix-turn-helix domains; Region: HTH; cl00088 743722003105 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 743722003106 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 743722003107 oligomerization interface [polypeptide binding]; other site 743722003108 active site 743722003109 NAD+ binding site [chemical binding]; other site 743722003110 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cl00482 743722003111 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 743722003112 active site 743722003113 hydrophilic channel; other site 743722003114 dimerization interface [polypeptide binding]; other site 743722003115 catalytic residues [active] 743722003116 active site lid [active] 743722003117 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 743722003118 active site 743722003119 multimer interface [polypeptide binding]; other site 743722003120 DHH family; Region: DHH; pfam01368 743722003121 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 743722003122 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 743722003123 active site 743722003124 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 743722003125 active site 743722003126 homodimer interface [polypeptide binding]; other site 743722003127 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 743722003128 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 743722003129 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 743722003130 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003131 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722003132 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 743722003133 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 743722003134 TRAM domain; Region: TRAM; cl01282 743722003135 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 743722003136 S-adenosylmethionine binding site [chemical binding]; other site 743722003137 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 743722003138 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 743722003139 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 743722003140 trehalase; Provisional; Region: treF; PRK13270 743722003141 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722003142 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 743722003143 Fatty acid desaturase; Region: FA_desaturase; pfam00487 743722003144 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 743722003145 putative di-iron ligands [ion binding]; other site 743722003146 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722003147 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 743722003148 active site 743722003149 catalytic residues [active] 743722003150 metal binding site [ion binding]; metal-binding site 743722003151 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 743722003152 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722003153 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 743722003154 putative acyl-acceptor binding pocket; other site 743722003155 acyl-CoA synthetase; Validated; Region: PRK09192 743722003156 AMP-binding enzyme; Region: AMP-binding; cl15778 743722003157 Phosphopantetheine attachment site; Region: PP-binding; cl09936 743722003158 Cytochrome P450; Region: p450; pfam00067 743722003159 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 743722003160 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 743722003161 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722003162 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003163 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 743722003164 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722003165 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 743722003166 Cupin domain; Region: Cupin_2; cl09118 743722003167 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722003168 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722003169 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722003170 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722003171 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 743722003172 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 743722003173 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 743722003174 Peptidase family M23; Region: Peptidase_M23; pfam01551 743722003175 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 743722003176 NADH(P)-binding; Region: NAD_binding_10; pfam13460 743722003177 NAD binding site [chemical binding]; other site 743722003178 substrate binding site [chemical binding]; other site 743722003179 putative active site [active] 743722003180 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722003181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722003182 DinB superfamily; Region: DinB_2; pfam12867 743722003183 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 743722003184 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722003185 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722003186 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722003187 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003188 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 743722003189 FecR protein; Region: FecR; pfam04773 743722003190 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722003191 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 743722003192 DNA binding residues [nucleotide binding] 743722003193 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 743722003194 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 743722003195 FAD binding pocket [chemical binding]; other site 743722003196 FAD binding motif [chemical binding]; other site 743722003197 phosphate binding motif [ion binding]; other site 743722003198 NAD binding pocket [chemical binding]; other site 743722003199 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 743722003200 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 743722003201 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722003202 Coenzyme A binding pocket [chemical binding]; other site 743722003203 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 743722003204 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722003205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722003206 Predicted amidohydrolase [General function prediction only]; Region: COG0388 743722003207 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 743722003208 putative active site [active] 743722003209 catalytic triad [active] 743722003210 putative dimer interface [polypeptide binding]; other site 743722003211 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 743722003212 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 743722003213 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 743722003214 RmuC family; Region: RmuC; pfam02646 743722003215 thiamine-monophosphate kinase; Region: thiL; TIGR01379 743722003216 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 743722003217 ATP binding site [chemical binding]; other site 743722003218 dimerization interface [polypeptide binding]; other site 743722003219 Quinolinate synthetase A protein; Region: NadA; cl00420 743722003220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722003221 L-aspartate oxidase; Provisional; Region: PRK09077 743722003222 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 743722003223 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 743722003224 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 743722003225 trimer interface [polypeptide binding]; other site 743722003226 putative metal binding site [ion binding]; other site 743722003227 Bacterial Ig-like domain; Region: Big_5; cl01012 743722003228 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 743722003229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722003230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722003231 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 743722003232 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 743722003233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722003234 Walker A/P-loop; other site 743722003235 ATP binding site [chemical binding]; other site 743722003236 Q-loop/lid; other site 743722003237 ABC transporter signature motif; other site 743722003238 Walker B; other site 743722003239 D-loop; other site 743722003240 H-loop/switch region; other site 743722003241 ABC transporter; Region: ABC_tran_2; pfam12848 743722003242 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 743722003243 Protein of unknown function (DUF525); Region: DUF525; cl01119 743722003244 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 743722003245 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 743722003246 FMN binding site [chemical binding]; other site 743722003247 active site 743722003248 catalytic residues [active] 743722003249 substrate binding site [chemical binding]; other site 743722003250 CAAX protease self-immunity; Region: Abi; cl00558 743722003251 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 743722003252 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 743722003253 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 743722003254 dimer interface [polypeptide binding]; other site 743722003255 motif 1; other site 743722003256 active site 743722003257 motif 2; other site 743722003258 motif 3; other site 743722003259 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 743722003260 anticodon binding site; other site 743722003261 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 743722003262 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 743722003263 Helix-turn-helix domains; Region: HTH; cl00088 743722003264 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 743722003265 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 743722003266 alpha subunit interface [polypeptide binding]; other site 743722003267 TPP binding site [chemical binding]; other site 743722003268 heterodimer interface [polypeptide binding]; other site 743722003269 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 743722003270 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 743722003271 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 743722003272 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 743722003273 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722003274 TM2 domain; Region: TM2; cl00984 743722003275 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 743722003276 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 743722003277 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 743722003278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722003279 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 743722003280 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 743722003281 dimer interface [polypeptide binding]; other site 743722003282 phosphorylation site [posttranslational modification] 743722003283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722003284 ATP binding site [chemical binding]; other site 743722003285 Mg2+ binding site [ion binding]; other site 743722003286 G-X-G motif; other site 743722003287 Acyl transferase domain; Region: Acyl_transf_1; cl08282 743722003288 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 743722003289 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 743722003290 homodecamer interface [polypeptide binding]; other site 743722003291 GTP cyclohydrolase I; Provisional; Region: PLN03044 743722003292 active site 743722003293 putative catalytic site residues [active] 743722003294 zinc binding site [ion binding]; other site 743722003295 GTP-CH-I/GFRP interaction surface; other site 743722003296 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 743722003297 active site 743722003298 nucleosidase; Provisional; Region: PRK05634 743722003299 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 743722003300 NMT1-like family; Region: NMT1_2; cl15260 743722003301 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 743722003302 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 743722003303 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 743722003304 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 743722003305 active site 743722003306 homotetramer interface [polypeptide binding]; other site 743722003307 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722003308 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 743722003309 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 743722003310 RimM N-terminal domain; Region: RimM; pfam01782 743722003311 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 743722003312 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 743722003313 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 743722003314 Zn2+ binding site [ion binding]; other site 743722003315 Mg2+ binding site [ion binding]; other site 743722003316 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 743722003317 THUMP domain; Region: THUMP; cl12076 743722003318 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; cl16911 743722003319 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 743722003320 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 743722003321 dimer interface [polypeptide binding]; other site 743722003322 phosphorylation site [posttranslational modification] 743722003323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722003324 ATP binding site [chemical binding]; other site 743722003325 Mg2+ binding site [ion binding]; other site 743722003326 G-X-G motif; other site 743722003327 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722003328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722003329 active site 743722003330 phosphorylation site [posttranslational modification] 743722003331 intermolecular recognition site; other site 743722003332 dimerization interface [polypeptide binding]; other site 743722003333 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 743722003334 DNA binding site [nucleotide binding] 743722003335 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 743722003336 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 743722003337 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 743722003338 tetrameric interface [polypeptide binding]; other site 743722003339 NAD binding site [chemical binding]; other site 743722003340 catalytic residues [active] 743722003341 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 743722003342 TPR repeat; Region: TPR_11; pfam13414 743722003343 binding surface 743722003344 TPR motif; other site 743722003345 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 743722003346 binding surface 743722003347 Tetratricopeptide repeat; Region: TPR_16; pfam13432 743722003348 TPR motif; other site 743722003349 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 743722003350 binding surface 743722003351 TPR repeat; Region: TPR_11; pfam13414 743722003352 TPR motif; other site 743722003353 TPR repeat; Region: TPR_11; pfam13414 743722003354 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722003355 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 743722003356 binding surface 743722003357 TPR motif; other site 743722003358 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 743722003359 binding surface 743722003360 TPR motif; other site 743722003361 TPR repeat; Region: TPR_11; pfam13414 743722003362 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 743722003363 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 743722003364 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 743722003365 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 743722003366 shikimate binding site; other site 743722003367 NAD(P) binding site [chemical binding]; other site 743722003368 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 743722003369 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722003370 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 743722003371 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722003372 FtsX-like permease family; Region: FtsX; cl15850 743722003373 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 743722003374 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 743722003375 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 743722003376 ATP binding site [chemical binding]; other site 743722003377 putative Mg++ binding site [ion binding]; other site 743722003378 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 743722003379 nucleotide binding region [chemical binding]; other site 743722003380 ATP-binding site [chemical binding]; other site 743722003381 TRCF domain; Region: TRCF; cl04088 743722003382 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 743722003383 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722003384 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 743722003385 Sodium:solute symporter family; Region: SSF; cl00456 743722003386 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 743722003387 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 743722003388 active site 743722003389 catalytic residues [active] 743722003390 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 743722003391 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 743722003392 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 743722003393 Helix-turn-helix domains; Region: HTH; cl00088 743722003394 PspC domain; Region: PspC; cl00864 743722003395 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 743722003396 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 743722003397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722003398 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 743722003399 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 743722003400 pyruvate kinase; Provisional; Region: PRK05826 743722003401 domain interfaces; other site 743722003402 active site 743722003403 Phosphopantetheine attachment site; Region: PP-binding; cl09936 743722003404 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 743722003405 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 743722003406 dimer interface [polypeptide binding]; other site 743722003407 active site 743722003408 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 743722003409 dimerization interface [polypeptide binding]; other site 743722003410 active site 743722003411 metal binding site [ion binding]; metal-binding site 743722003412 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; cl00054 743722003413 recombination factor protein RarA; Reviewed; Region: PRK13342 743722003414 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 743722003415 Walker A motif; other site 743722003416 ATP binding site [chemical binding]; other site 743722003417 Walker B motif; other site 743722003418 arginine finger; other site 743722003419 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 743722003420 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722003421 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722003422 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722003423 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722003424 carboxy-terminal protease; Provisional; Region: PRK11186 743722003425 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 743722003426 protein binding site [polypeptide binding]; other site 743722003427 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 743722003428 Catalytic dyad [active] 743722003429 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 743722003430 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 743722003431 putative FMN binding site [chemical binding]; other site 743722003432 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003433 NifU-like domain; Region: NifU; cl00484 743722003434 antiporter inner membrane protein; Provisional; Region: PRK11670 743722003435 Domain of unknown function DUF59; Region: DUF59; cl00941 743722003436 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 743722003437 Transglycosylase; Region: Transgly; cl07896 743722003438 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722003439 active site 743722003440 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 743722003441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722003442 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 743722003443 dimer interface [polypeptide binding]; other site 743722003444 phosphorylation site [posttranslational modification] 743722003445 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722003446 ATP binding site [chemical binding]; other site 743722003447 Mg2+ binding site [ion binding]; other site 743722003448 G-X-G motif; other site 743722003449 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 743722003450 Phosphate transporter family; Region: PHO4; cl00396 743722003451 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722003452 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722003453 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 743722003454 DNA binding residues [nucleotide binding] 743722003455 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 743722003456 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 743722003457 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 743722003458 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 743722003459 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 743722003460 Putative zinc ribbon domain; Region: DUF164; pfam02591 743722003461 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 743722003462 peptidase T; Region: peptidase-T; TIGR01882 743722003463 metal binding site [ion binding]; metal-binding site 743722003464 dimer interface [polypeptide binding]; other site 743722003465 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 743722003466 putative active site [active] 743722003467 dimerization interface [polypeptide binding]; other site 743722003468 putative tRNAtyr binding site [nucleotide binding]; other site 743722003469 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 743722003470 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 743722003471 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 743722003472 ATP binding site [chemical binding]; other site 743722003473 substrate interface [chemical binding]; other site 743722003474 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722003475 active site residue [active] 743722003476 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 743722003477 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 743722003478 FeS/SAM binding site; other site 743722003479 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 743722003480 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 743722003481 ThiS interaction site; other site 743722003482 putative active site [active] 743722003483 tetramer interface [polypeptide binding]; other site 743722003484 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 743722003485 active site 743722003486 thiamine phosphate binding site [chemical binding]; other site 743722003487 pyrophosphate binding site [ion binding]; other site 743722003488 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 743722003489 thiamine phosphate binding site [chemical binding]; other site 743722003490 active site 743722003491 pyrophosphate binding site [ion binding]; other site 743722003492 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 743722003493 ThiC-associated domain; Region: ThiC-associated; pfam13667 743722003494 ThiC family; Region: ThiC; cl08031 743722003495 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 743722003496 thiS-thiF/thiG interaction site; other site 743722003497 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 743722003498 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 743722003499 putative active site [active] 743722003500 putative catalytic site [active] 743722003501 putative DNA binding site [nucleotide binding]; other site 743722003502 putative phosphate binding site [ion binding]; other site 743722003503 metal binding site A [ion binding]; metal-binding site 743722003504 putative AP binding site [nucleotide binding]; other site 743722003505 putative metal binding site B [ion binding]; other site 743722003506 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 743722003507 active site 743722003508 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 743722003509 heme-binding site [chemical binding]; other site 743722003510 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722003511 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722003512 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 743722003513 protein binding site [polypeptide binding]; other site 743722003514 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 743722003515 Catalytic dyad [active] 743722003516 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722003517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722003518 active site 743722003519 phosphorylation site [posttranslational modification] 743722003520 intermolecular recognition site; other site 743722003521 dimerization interface [polypeptide binding]; other site 743722003522 LytTr DNA-binding domain; Region: LytTR; cl04498 743722003523 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722003524 Histidine kinase; Region: His_kinase; pfam06580 743722003525 Helix-turn-helix domains; Region: HTH; cl00088 743722003526 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 743722003527 Gram-negative bacterial tonB protein; Region: TonB; cl10048 743722003528 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 743722003529 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 743722003530 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 743722003531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722003532 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 743722003533 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 743722003534 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 743722003535 putative Iron-sulfur protein interface [polypeptide binding]; other site 743722003536 proximal heme binding site [chemical binding]; other site 743722003537 distal heme binding site [chemical binding]; other site 743722003538 putative dimer interface [polypeptide binding]; other site 743722003539 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 743722003540 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 743722003541 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 743722003542 protein binding site [polypeptide binding]; other site 743722003543 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 743722003544 protein binding site [polypeptide binding]; other site 743722003545 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 743722003546 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 743722003547 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 743722003548 SurA N-terminal domain; Region: SurA_N_3; cl07813 743722003549 PPIC-type PPIASE domain; Region: Rotamase; cl08278 743722003550 PPIC-type PPIASE domain; Region: Rotamase; cl08278 743722003551 PPIC-type PPIASE domain; Region: Rotamase; cl08278 743722003552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 743722003553 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722003554 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722003555 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 743722003556 putative active site [active] 743722003557 putative metal binding site [ion binding]; other site 743722003558 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722003559 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722003560 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722003561 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 743722003562 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 743722003563 active site residue [active] 743722003564 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722003565 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 743722003566 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722003567 Helix-turn-helix domains; Region: HTH; cl00088 743722003568 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722003569 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003570 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 743722003571 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722003572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 743722003573 Putative glucoamylase; Region: Glycoamylase; pfam10091 743722003574 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722003575 active site 743722003576 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722003577 sugar binding site [chemical binding]; other site 743722003578 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 743722003579 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 743722003580 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722003581 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 743722003582 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 743722003583 DoxX; Region: DoxX; cl00976 743722003584 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 743722003585 dimer interface [polypeptide binding]; other site 743722003586 catalytic triad [active] 743722003587 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 743722003588 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 743722003589 active site 743722003590 HIGH motif; other site 743722003591 KMSKS motif; other site 743722003592 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 743722003593 tRNA binding surface [nucleotide binding]; other site 743722003594 anticodon binding site; other site 743722003595 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 743722003596 dimer interface [polypeptide binding]; other site 743722003597 putative tRNA-binding site [nucleotide binding]; other site 743722003598 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 743722003599 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 743722003600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722003601 catalytic residue [active] 743722003602 homoserine kinase; Provisional; Region: PRK01212 743722003603 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 743722003604 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 743722003605 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 743722003606 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 743722003607 putative catalytic residues [active] 743722003608 nucleotide binding site [chemical binding]; other site 743722003609 aspartate binding site [chemical binding]; other site 743722003610 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 743722003611 dimer interface [polypeptide binding]; other site 743722003612 putative threonine allosteric regulatory site; other site 743722003613 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 743722003614 putative threonine allosteric regulatory site; other site 743722003615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722003616 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 743722003617 ribosome recycling factor; Reviewed; Region: frr; PRK00083 743722003618 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 743722003619 hinge region; other site 743722003620 GTPase RsgA; Reviewed; Region: PRK00098 743722003621 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 743722003622 RNA binding site [nucleotide binding]; other site 743722003623 homodimer interface [polypeptide binding]; other site 743722003624 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 743722003625 GTPase/Zn-binding domain interface [polypeptide binding]; other site 743722003626 GTP/Mg2+ binding site [chemical binding]; other site 743722003627 G4 box; other site 743722003628 G5 box; other site 743722003629 G1 box; other site 743722003630 Switch I region; other site 743722003631 G2 box; other site 743722003632 G3 box; other site 743722003633 Switch II region; other site 743722003634 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 743722003635 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 743722003636 HIGH motif; other site 743722003637 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 743722003638 active site 743722003639 KMSKS motif; other site 743722003640 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722003641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722003642 ATP binding site [chemical binding]; other site 743722003643 Mg2+ binding site [ion binding]; other site 743722003644 G-X-G motif; other site 743722003645 DinB superfamily; Region: DinB_2; pfam12867 743722003646 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722003647 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722003648 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 743722003649 putative substrate translocation pore; other site 743722003650 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 743722003651 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 743722003652 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 743722003653 signal recognition particle protein; Provisional; Region: PRK10867 743722003654 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 743722003655 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 743722003656 P loop; other site 743722003657 GTP binding site [chemical binding]; other site 743722003658 Signal peptide binding domain; Region: SRP_SPB; pfam02978 743722003659 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 743722003660 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 743722003661 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722003662 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 743722003663 elongation factor Ts; Provisional; Region: tsf; PRK09377 743722003664 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 743722003665 Elongation factor TS; Region: EF_TS; pfam00889 743722003666 Elongation factor TS; Region: EF_TS; pfam00889 743722003667 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 743722003668 rRNA interaction site [nucleotide binding]; other site 743722003669 S8 interaction site; other site 743722003670 putative laminin-1 binding site; other site 743722003671 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 743722003672 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 743722003673 23S rRNA interface [nucleotide binding]; other site 743722003674 L3 interface [polypeptide binding]; other site 743722003675 multidrug efflux protein; Reviewed; Region: PRK01766 743722003676 MatE; Region: MatE; cl10513 743722003677 MatE; Region: MatE; cl10513 743722003678 peptide chain release factor 1; Validated; Region: prfA; PRK00591 743722003679 RF-1 domain; Region: RF-1; cl02875 743722003680 RF-1 domain; Region: RF-1; cl02875 743722003681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722003682 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 743722003683 putative substrate translocation pore; other site 743722003684 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722003685 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 743722003686 putative active site [active] 743722003687 putative metal binding site [ion binding]; other site 743722003688 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722003689 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722003690 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722003691 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 743722003692 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 743722003693 TraB family; Region: TraB; cl12050 743722003694 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 743722003695 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 743722003696 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 743722003697 generic binding surface II; other site 743722003698 generic binding surface I; other site 743722003699 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003700 DinB superfamily; Region: DinB_2; pfam12867 743722003701 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 743722003702 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 743722003703 substrate-cofactor binding pocket; other site 743722003704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722003705 catalytic residue [active] 743722003706 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 743722003707 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 743722003708 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 743722003709 dimer interface [polypeptide binding]; other site 743722003710 motif 1; other site 743722003711 active site 743722003712 motif 2; other site 743722003713 motif 3; other site 743722003714 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; cd03467 743722003715 iron-sulfur cluster [ion binding]; other site 743722003716 [2Fe-2S] cluster binding site [ion binding]; other site 743722003717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722003718 Helix-turn-helix domains; Region: HTH; cl00088 743722003719 Sodium:solute symporter family; Region: SSF; cl00456 743722003720 Sodium:solute symporter family; Region: SSF; cl00456 743722003721 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 743722003722 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 743722003723 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 743722003724 active site 743722003725 dimerization interface [polypeptide binding]; other site 743722003726 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 743722003727 active site 743722003728 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722003729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 743722003730 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722003731 SurA N-terminal domain; Region: SurA_N_3; cl07813 743722003732 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 743722003733 PPIC-type PPIASE domain; Region: Rotamase; cl08278 743722003734 PPIC-type PPIASE domain; Region: Rotamase; cl08278 743722003735 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 743722003736 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722003737 active site 743722003738 HIGH motif; other site 743722003739 nucleotide binding site [chemical binding]; other site 743722003740 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 743722003741 KMSKS motif; other site 743722003742 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 743722003743 tRNA binding surface [nucleotide binding]; other site 743722003744 anticodon binding site; other site 743722003745 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 743722003746 putative catalytic site [active] 743722003747 putative metal binding site [ion binding]; other site 743722003748 putative phosphate binding site [ion binding]; other site 743722003749 Rhomboid family; Region: Rhomboid; cl11446 743722003750 Rhomboid family; Region: Rhomboid; cl11446 743722003751 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 743722003752 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722003753 ATP binding site [chemical binding]; other site 743722003754 Mg2+ binding site [ion binding]; other site 743722003755 G-X-G motif; other site 743722003756 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 743722003757 ATP binding site [chemical binding]; other site 743722003758 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 743722003759 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 743722003760 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 743722003761 tetramer interface [polypeptide binding]; other site 743722003762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722003763 catalytic residue [active] 743722003764 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 743722003765 catalytic residues [active] 743722003766 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 743722003767 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 743722003768 dimer interface [polypeptide binding]; other site 743722003769 decamer (pentamer of dimers) interface [polypeptide binding]; other site 743722003770 catalytic triad [active] 743722003771 peroxidatic and resolving cysteines [active] 743722003772 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 743722003773 GIY-YIG motif/motif A; other site 743722003774 putative active site [active] 743722003775 putative metal binding site [ion binding]; other site 743722003776 short chain dehydrogenase; Provisional; Region: PRK08263 743722003777 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722003778 NADP binding site [chemical binding]; other site 743722003779 active site 743722003780 steroid binding site; other site 743722003781 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722003782 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722003783 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 743722003784 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 743722003785 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722003786 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 743722003787 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 743722003788 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 743722003789 S-adenosylmethionine binding site [chemical binding]; other site 743722003790 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 743722003791 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722003792 DNA-binding site [nucleotide binding]; DNA binding site 743722003793 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 743722003794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722003795 homodimer interface [polypeptide binding]; other site 743722003796 catalytic residue [active] 743722003797 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 743722003798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722003799 Coenzyme A binding pocket [chemical binding]; other site 743722003800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722003801 Coenzyme A binding pocket [chemical binding]; other site 743722003802 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 743722003803 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722003804 DinB superfamily; Region: DinB_2; pfam12867 743722003805 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 743722003806 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 743722003807 DNA binding site [nucleotide binding] 743722003808 active site 743722003809 Predicted methyltransferases [General function prediction only]; Region: COG0313 743722003810 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 743722003811 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 743722003812 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722003813 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 743722003814 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 743722003815 substrate binding site [chemical binding]; other site 743722003816 oxyanion hole (OAH) forming residues; other site 743722003817 trimer interface [polypeptide binding]; other site 743722003818 short chain dehydrogenase; Provisional; Region: PRK07677 743722003819 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 743722003820 NAD(P) binding site [chemical binding]; other site 743722003821 substrate binding site [chemical binding]; other site 743722003822 homotetramer interface [polypeptide binding]; other site 743722003823 active site 743722003824 homodimer interface [polypeptide binding]; other site 743722003825 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 743722003826 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722003827 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003828 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722003829 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 743722003830 N-terminal plug; other site 743722003831 ligand-binding site [chemical binding]; other site 743722003832 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 743722003833 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 743722003834 chorismate binding enzyme; Region: Chorismate_bind; cl10555 743722003835 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 743722003836 Glutamine amidotransferase class-I; Region: GATase; pfam00117 743722003837 glutamine binding [chemical binding]; other site 743722003838 catalytic triad [active] 743722003839 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 743722003840 active site 743722003841 ribulose/triose binding site [chemical binding]; other site 743722003842 phosphate binding site [ion binding]; other site 743722003843 substrate (anthranilate) binding pocket [chemical binding]; other site 743722003844 product (indole) binding pocket [chemical binding]; other site 743722003845 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 743722003846 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 743722003847 active site 743722003848 trimer interface [polypeptide binding]; other site 743722003849 allosteric site; other site 743722003850 active site lid [active] 743722003851 hexamer (dimer of trimers) interface [polypeptide binding]; other site 743722003852 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 743722003853 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 743722003854 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 743722003855 active site 743722003856 (T/H)XGH motif; other site 743722003857 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 743722003858 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 743722003859 catalytic site [active] 743722003860 G-X2-G-X-G-K; other site 743722003861 hypothetical protein; Provisional; Region: PRK11820 743722003862 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 743722003863 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 743722003864 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722003865 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722003866 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 743722003867 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722003868 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722003869 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722003870 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722003871 ligand binding site [chemical binding]; other site 743722003872 DNA polymerase I; Provisional; Region: PRK05755 743722003873 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 743722003874 active site 743722003875 metal binding site 1 [ion binding]; metal-binding site 743722003876 putative 5' ssDNA interaction site; other site 743722003877 metal binding site 3; metal-binding site 743722003878 metal binding site 2 [ion binding]; metal-binding site 743722003879 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 743722003880 putative DNA binding site [nucleotide binding]; other site 743722003881 putative metal binding site [ion binding]; other site 743722003882 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 743722003883 active site 743722003884 catalytic site [active] 743722003885 substrate binding site [chemical binding]; other site 743722003886 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 743722003887 active site 743722003888 DNA binding site [nucleotide binding] 743722003889 catalytic site [active] 743722003890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 743722003891 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722003892 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 743722003893 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722003894 fumarate hydratase; Reviewed; Region: fumC; PRK00485 743722003895 Class II fumarases; Region: Fumarase_classII; cd01362 743722003896 active site 743722003897 tetramer interface [polypeptide binding]; other site 743722003898 Surface antigen; Region: Bac_surface_Ag; cl03097 743722003899 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; cl16911 743722003900 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 743722003901 putative active site [active] 743722003902 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 743722003903 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 743722003904 Interdomain contacts; other site 743722003905 Cytokine receptor motif; other site 743722003906 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 743722003907 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 743722003908 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 743722003909 tetramer interface [polypeptide binding]; other site 743722003910 heme binding pocket [chemical binding]; other site 743722003911 NADPH binding site [chemical binding]; other site 743722003912 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 743722003913 Helix-turn-helix domains; Region: HTH; cl00088 743722003914 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 743722003915 dimerization interface [polypeptide binding]; other site 743722003916 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 743722003917 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 743722003918 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 743722003919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722003920 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 743722003921 Response regulator receiver domain; Region: Response_reg; pfam00072 743722003922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722003923 active site 743722003924 phosphorylation site [posttranslational modification] 743722003925 intermolecular recognition site; other site 743722003926 dimerization interface [polypeptide binding]; other site 743722003927 PglZ domain; Region: PglZ; pfam08665 743722003928 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 743722003929 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722003930 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 743722003931 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 743722003932 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 743722003933 trimer interface [polypeptide binding]; other site 743722003934 active site 743722003935 UDP-GlcNAc binding site [chemical binding]; other site 743722003936 lipid binding site [chemical binding]; lipid-binding site 743722003937 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 743722003938 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 743722003939 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 743722003940 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 743722003941 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 743722003942 active site 743722003943 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 743722003944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722003945 Walker A/P-loop; other site 743722003946 ATP binding site [chemical binding]; other site 743722003947 Q-loop/lid; other site 743722003948 ABC transporter signature motif; other site 743722003949 Walker B; other site 743722003950 D-loop; other site 743722003951 H-loop/switch region; other site 743722003952 elongation factor P; Validated; Region: PRK00529 743722003953 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 743722003954 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 743722003955 RNA binding site [nucleotide binding]; other site 743722003956 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 743722003957 RNA binding site [nucleotide binding]; other site 743722003958 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 743722003959 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 743722003960 active site 743722003961 Zn binding site [ion binding]; other site 743722003962 Deoxyhypusine synthase; Region: DS; cl00826 743722003963 Cytochrome c; Region: Cytochrom_C; cl11414 743722003964 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 743722003965 heme-binding residues [chemical binding]; other site 743722003966 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 743722003967 molybdopterin cofactor binding site; other site 743722003968 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 743722003969 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 743722003970 Polysulphide reductase, NrfD; Region: NrfD; cl01295 743722003971 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 743722003972 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 743722003973 Cytochrome c; Region: Cytochrom_C; cl11414 743722003974 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 743722003975 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 743722003976 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 743722003977 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 743722003978 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 743722003979 D-pathway; other site 743722003980 Low-spin heme binding site [chemical binding]; other site 743722003981 Putative water exit pathway; other site 743722003982 Binuclear center (active site) [active] 743722003983 K-pathway; other site 743722003984 Putative proton exit pathway; other site 743722003985 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 743722003986 UbiA prenyltransferase family; Region: UbiA; cl00337 743722003987 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 743722003988 Subunit I/III interface [polypeptide binding]; other site 743722003989 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 743722003990 Subunit I/III interface [polypeptide binding]; other site 743722003991 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 743722003992 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722003993 Protein of unknown function (DUF420); Region: DUF420; cl00989 743722003994 Protein of unknown function (DUF983); Region: DUF983; cl02211 743722003995 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722003996 ligand binding site [chemical binding]; other site 743722003997 Cupin domain; Region: Cupin_2; cl09118 743722003998 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 743722003999 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722004000 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 743722004001 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 743722004002 dimer interface [polypeptide binding]; other site 743722004003 phosphorylation site [posttranslational modification] 743722004004 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722004005 ATP binding site [chemical binding]; other site 743722004006 Mg2+ binding site [ion binding]; other site 743722004007 G-X-G motif; other site 743722004008 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722004009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722004010 active site 743722004011 phosphorylation site [posttranslational modification] 743722004012 intermolecular recognition site; other site 743722004013 dimerization interface [polypeptide binding]; other site 743722004014 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 743722004015 DNA binding site [nucleotide binding] 743722004016 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 743722004017 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 743722004018 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 743722004019 nucleotide binding site/active site [active] 743722004020 HIT family signature motif; other site 743722004021 catalytic residue [active] 743722004022 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 743722004023 active site 743722004024 putative DNA-binding cleft [nucleotide binding]; other site 743722004025 dimer interface [polypeptide binding]; other site 743722004026 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 743722004027 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722004028 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 743722004029 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 743722004030 putative acyl-acceptor binding pocket; other site 743722004031 S-adenosylmethionine synthetase; Validated; Region: PRK05250 743722004032 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 743722004033 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 743722004034 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 743722004035 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 743722004036 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 743722004037 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 743722004038 putative rRNA binding site [nucleotide binding]; other site 743722004039 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 743722004040 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 743722004041 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 743722004042 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 743722004043 Gram-negative bacterial tonB protein; Region: TonB; cl10048 743722004044 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 743722004045 Tetratricopeptide repeat; Region: TPR_16; pfam13432 743722004046 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 743722004047 TPR motif; other site 743722004048 binding surface 743722004049 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 743722004050 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 743722004051 TPR motif; other site 743722004052 binding surface 743722004053 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 743722004054 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 743722004055 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 743722004056 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 743722004057 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 743722004058 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 743722004059 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 743722004060 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 743722004061 putative dimer interface [polypeptide binding]; other site 743722004062 [2Fe-2S] cluster binding site [ion binding]; other site 743722004063 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 743722004064 SLBB domain; Region: SLBB; pfam10531 743722004065 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 743722004066 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 743722004067 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 743722004068 catalytic loop [active] 743722004069 iron binding site [ion binding]; other site 743722004070 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 743722004071 NADH dehydrogenase; Region: NADHdh; cl00469 743722004072 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 743722004073 4Fe-4S binding domain; Region: Fer4; cl02805 743722004074 4Fe-4S binding domain; Region: Fer4; cl02805 743722004075 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 743722004076 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 743722004077 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 743722004078 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 743722004079 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 743722004080 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722004081 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 743722004082 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722004083 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 743722004084 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722004085 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 743722004086 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 743722004087 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 743722004088 dimer interface [polypeptide binding]; other site 743722004089 substrate binding site [chemical binding]; other site 743722004090 metal binding sites [ion binding]; metal-binding site 743722004091 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 743722004092 Domain of unknown function DUF21; Region: DUF21; pfam01595 743722004093 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 743722004094 Transporter associated domain; Region: CorC_HlyC; cl08393 743722004095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 743722004096 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 743722004097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004098 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 743722004099 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 743722004100 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 743722004101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722004102 homodimer interface [polypeptide binding]; other site 743722004103 catalytic residue [active] 743722004104 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 743722004105 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722004106 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. 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 organic...; Region: ABCC_MsbA; cd03251 743722004107 Walker A/P-loop; other site 743722004108 ATP binding site [chemical binding]; other site 743722004109 Q-loop/lid; other site 743722004110 ABC transporter signature motif; other site 743722004111 Walker B; other site 743722004112 D-loop; other site 743722004113 H-loop/switch region; other site 743722004114 translation initiation factor IF-2; Region: IF-2; TIGR00487 743722004115 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 743722004116 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 743722004117 G1 box; other site 743722004118 putative GEF interaction site [polypeptide binding]; other site 743722004119 GTP/Mg2+ binding site [chemical binding]; other site 743722004120 Switch I region; other site 743722004121 G2 box; other site 743722004122 G3 box; other site 743722004123 Switch II region; other site 743722004124 G4 box; other site 743722004125 G5 box; other site 743722004126 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 743722004127 Translation-initiation factor 2; Region: IF-2; pfam11987 743722004128 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 743722004129 transcription termination factor NusA; Region: NusA; TIGR01953 743722004130 NusA N-terminal domain; Region: NusA_N; pfam08529 743722004131 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 743722004132 RNA binding site [nucleotide binding]; other site 743722004133 homodimer interface [polypeptide binding]; other site 743722004134 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 743722004135 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 743722004136 G-X-X-G motif; other site 743722004137 ribosome maturation protein RimP; Reviewed; Region: PRK00092 743722004138 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 743722004139 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 743722004140 Sm1 motif; other site 743722004141 D1 - D2 interaction site; other site 743722004142 D3 - B interaction site; other site 743722004143 Hfq - Hfq interaction site; other site 743722004144 RNA binding pocket [nucleotide binding]; other site 743722004145 Sm2 motif; other site 743722004146 Membrane protein of unknown function; Region: DUF360; cl00850 743722004147 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 743722004148 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 743722004149 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_5; cd04962 743722004150 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 743722004151 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722004152 OstA-like protein; Region: OstA_2; pfam13100 743722004153 Peptidase S46; Region: Peptidase_S46; pfam10459 743722004154 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 743722004155 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 743722004156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722004157 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722004158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004159 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722004160 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 743722004161 Ligand Binding Site [chemical binding]; other site 743722004162 B3/4 domain; Region: B3_4; cl11458 743722004163 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 743722004164 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 743722004165 metal-binding site 743722004166 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 743722004167 active site 743722004168 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 743722004169 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 743722004170 active site 743722004171 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 743722004172 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 743722004173 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; cl16911 743722004174 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 743722004175 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 743722004176 G1 box; other site 743722004177 putative GEF interaction site [polypeptide binding]; other site 743722004178 GTP/Mg2+ binding site [chemical binding]; other site 743722004179 Switch I region; other site 743722004180 G2 box; other site 743722004181 G3 box; other site 743722004182 Switch II region; other site 743722004183 G4 box; other site 743722004184 G5 box; other site 743722004185 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 743722004186 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 743722004187 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 743722004188 homotrimer interaction site [polypeptide binding]; other site 743722004189 zinc binding site [ion binding]; other site 743722004190 CDP-binding sites; other site 743722004191 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 743722004192 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 743722004193 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 743722004194 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 743722004195 pantoate--beta-alanine ligase; Region: panC; TIGR00018 743722004196 Pantoate-beta-alanine ligase; Region: PanC; cd00560 743722004197 active site 743722004198 ATP-binding site [chemical binding]; other site 743722004199 pantoate-binding site; other site 743722004200 HXXH motif; other site 743722004201 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 743722004202 tetramerization interface [polypeptide binding]; other site 743722004203 active site 743722004204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722004205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722004206 active site 743722004207 phosphorylation site [posttranslational modification] 743722004208 intermolecular recognition site; other site 743722004209 dimerization interface [polypeptide binding]; other site 743722004210 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 743722004211 DNA binding site [nucleotide binding] 743722004212 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 743722004213 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 743722004214 dimer interface [polypeptide binding]; other site 743722004215 phosphorylation site [posttranslational modification] 743722004216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722004217 ATP binding site [chemical binding]; other site 743722004218 Mg2+ binding site [ion binding]; other site 743722004219 G-X-G motif; other site 743722004220 PIF1-like helicase; Region: PIF1; pfam05970 743722004221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722004222 Family description; Region: UvrD_C_2; cl15862 743722004223 Peptidase family M1; Region: Peptidase_M1; pfam01433 743722004224 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 743722004225 Zn binding site [ion binding]; other site 743722004226 HEAT repeats; Region: HEAT_2; pfam13646 743722004227 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 743722004228 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 743722004229 catalytic residues [active] 743722004230 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 743722004231 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 743722004232 FAD binding site [chemical binding]; other site 743722004233 homotetramer interface [polypeptide binding]; other site 743722004234 substrate binding pocket [chemical binding]; other site 743722004235 catalytic base [active] 743722004236 Cupin domain; Region: Cupin_2; cl09118 743722004237 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 743722004238 Histidine kinase-like ATPases; This family includes several ATP-binding 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 743722004239 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 743722004240 anchoring element; other site 743722004241 dimer interface [polypeptide binding]; other site 743722004242 ATP binding site [chemical binding]; other site 743722004243 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 743722004244 active site 743722004245 putative metal-binding site [ion binding]; other site 743722004246 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 743722004247 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 743722004248 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 743722004249 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 743722004250 putative active site [active] 743722004251 putative substrate binding site [chemical binding]; other site 743722004252 putative cosubstrate binding site; other site 743722004253 catalytic site [active] 743722004254 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004255 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004256 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722004257 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004258 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004259 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722004260 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 743722004261 active site 743722004262 catalytic tetrad [active] 743722004263 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 743722004264 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 743722004265 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 743722004266 PA/protease or protease-like domain interface [polypeptide binding]; other site 743722004267 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 743722004268 metal binding site [ion binding]; metal-binding site 743722004269 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722004270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 743722004271 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722004272 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722004273 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722004274 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 743722004275 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; cl00148 743722004276 CAP-like domain; other site 743722004277 active site 743722004278 primary dimer interface [polypeptide binding]; other site 743722004279 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 743722004280 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 743722004281 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722004282 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722004283 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 743722004284 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722004285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004286 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004287 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004288 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722004289 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004290 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004291 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 743722004292 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 743722004293 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722004294 FecR protein; Region: FecR; pfam04773 743722004295 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004296 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004297 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 743722004298 DNA binding residues [nucleotide binding] 743722004299 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 743722004300 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 743722004301 S-adenosylmethionine binding site [chemical binding]; other site 743722004302 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 743722004303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722004304 Walker A/P-loop; other site 743722004305 ATP binding site [chemical binding]; other site 743722004306 Q-loop/lid; other site 743722004307 ABC transporter signature motif; other site 743722004308 Walker B; other site 743722004309 D-loop; other site 743722004310 H-loop/switch region; other site 743722004311 Permease; Region: Permease; cl00510 743722004312 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 743722004313 classical (c) SDRs; Region: SDR_c; cd05233 743722004314 NAD(P) binding site [chemical binding]; other site 743722004315 active site 743722004316 PspC domain; Region: PspC; cl00864 743722004317 RDD family; Region: RDD; cl00746 743722004318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722004319 Helix-turn-helix domains; Region: HTH; cl00088 743722004320 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722004321 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 743722004322 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 743722004323 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 743722004324 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 743722004325 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 743722004326 putative substrate translocation pore; other site 743722004327 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 743722004328 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722004329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722004330 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722004331 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 743722004332 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 743722004333 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 743722004334 DNA photolyase; Region: DNA_photolyase; pfam00875 743722004335 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 743722004336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004337 TIGR01777 family protein; Region: yfcH 743722004338 NAD(P) binding site [chemical binding]; other site 743722004339 active site 743722004340 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 743722004341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004342 NAD(P) binding site [chemical binding]; other site 743722004343 active site 743722004344 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 743722004345 DNA photolyase; Region: DNA_photolyase; pfam00875 743722004346 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 743722004347 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 743722004348 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 743722004349 TPP-binding site [chemical binding]; other site 743722004350 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 743722004351 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 743722004352 E3 interaction surface; other site 743722004353 lipoyl attachment site [posttranslational modification]; other site 743722004354 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 743722004355 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 743722004356 E3 interaction surface; other site 743722004357 lipoyl attachment site [posttranslational modification]; other site 743722004358 e3 binding domain; Region: E3_binding; pfam02817 743722004359 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 743722004360 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 743722004361 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 743722004362 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 743722004363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722004365 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 743722004366 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 743722004367 Sulfatase; Region: Sulfatase; cl10460 743722004368 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722004369 Sulfatase; Region: Sulfatase; cl10460 743722004370 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 743722004371 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 743722004372 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 743722004373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722004374 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 743722004375 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722004376 Helix-turn-helix domains; Region: HTH; cl00088 743722004377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722004378 Helix-turn-helix domains; Region: HTH; cl00088 743722004379 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 743722004380 FAD binding domain; Region: FAD_binding_4; pfam01565 743722004381 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 743722004382 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 743722004383 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004384 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 743722004385 DNA binding residues [nucleotide binding] 743722004386 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 743722004387 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 743722004388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 743722004389 substrate binding site [chemical binding]; other site 743722004390 ATP binding site [chemical binding]; other site 743722004391 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 743722004392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722004394 glycyl-tRNA synthetase; Provisional; Region: PRK04173 743722004395 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 743722004396 motif 1; other site 743722004397 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 743722004398 active site 743722004399 motif 2; other site 743722004400 motif 3; other site 743722004401 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 743722004402 anticodon binding site; other site 743722004403 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 743722004404 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 743722004405 putative active site [active] 743722004406 catalytic site [active] 743722004407 putative metal binding site [ion binding]; other site 743722004408 oligomer interface [polypeptide binding]; other site 743722004409 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 743722004410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722004411 Walker A/P-loop; other site 743722004412 ATP binding site [chemical binding]; other site 743722004413 Q-loop/lid; other site 743722004414 ABC transporter signature motif; other site 743722004415 Walker B; other site 743722004416 D-loop; other site 743722004417 H-loop/switch region; other site 743722004418 ABC-2 type transporter; Region: ABC2_membrane; cl11417 743722004419 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 743722004420 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 743722004421 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 743722004422 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 743722004423 Cupin domain; Region: Cupin_2; cl09118 743722004424 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722004425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004426 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004427 DNA polymerase III subunit beta; Validated; Region: PRK05643 743722004428 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 743722004429 putative DNA binding surface [nucleotide binding]; other site 743722004430 dimer interface [polypeptide binding]; other site 743722004431 beta-clamp/clamp loader binding surface; other site 743722004432 beta-clamp/translesion DNA polymerase binding surface; other site 743722004433 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 743722004434 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 743722004435 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 743722004436 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 743722004437 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 743722004438 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 743722004439 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 743722004440 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 743722004441 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 743722004442 putative translocon binding site; other site 743722004443 protein-rRNA interface [nucleotide binding]; other site 743722004444 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 743722004445 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 743722004446 G-X-X-G motif; other site 743722004447 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 743722004448 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 743722004449 23S rRNA interface [nucleotide binding]; other site 743722004450 5S rRNA interface [nucleotide binding]; other site 743722004451 putative antibiotic binding site [chemical binding]; other site 743722004452 L25 interface [polypeptide binding]; other site 743722004453 L27 interface [polypeptide binding]; other site 743722004454 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 743722004455 putative translocon interaction site; other site 743722004456 23S rRNA interface [nucleotide binding]; other site 743722004457 signal recognition particle (SRP54) interaction site; other site 743722004458 L23 interface [polypeptide binding]; other site 743722004459 trigger factor interaction site; other site 743722004460 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 743722004461 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 743722004462 KOW motif; Region: KOW; cl00354 743722004463 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 743722004464 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 743722004465 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 743722004466 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 743722004467 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 743722004468 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 743722004469 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 743722004470 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 743722004471 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 743722004472 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 743722004473 23S rRNA interface [nucleotide binding]; other site 743722004474 L21e interface [polypeptide binding]; other site 743722004475 5S rRNA interface [nucleotide binding]; other site 743722004476 L27 interface [polypeptide binding]; other site 743722004477 L5 interface [polypeptide binding]; other site 743722004478 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 743722004479 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 743722004480 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 743722004481 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 743722004482 23S rRNA binding site [nucleotide binding]; other site 743722004483 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 743722004484 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 743722004485 SecY translocase; Region: SecY; pfam00344 743722004486 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 743722004487 active site 743722004488 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 743722004489 rRNA binding site [nucleotide binding]; other site 743722004490 predicted 30S ribosome binding site; other site 743722004491 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 743722004492 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 743722004493 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 743722004494 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 743722004495 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 743722004496 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 743722004497 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 743722004498 RNA binding surface [nucleotide binding]; other site 743722004499 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 743722004500 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 743722004501 alphaNTD homodimer interface [polypeptide binding]; other site 743722004502 alphaNTD - beta interaction site [polypeptide binding]; other site 743722004503 alphaNTD - beta' interaction site [polypeptide binding]; other site 743722004504 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 743722004505 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 743722004506 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; cl16911 743722004507 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 743722004508 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 743722004509 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 743722004510 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 743722004511 motif II; other site 743722004512 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 743722004513 active site 743722004514 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 743722004515 FAD binding domain; Region: FAD_binding_4; pfam01565 743722004516 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 743722004517 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722004518 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 743722004519 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 743722004520 active site 743722004521 Domain of unknown function DUF87; Region: DUF87; pfam01935 743722004522 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 743722004523 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722004524 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722004525 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 743722004526 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 743722004527 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 743722004528 substrate binding site; other site 743722004529 tetramer interface; other site 743722004530 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 743722004531 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 743722004532 NADP-binding site; other site 743722004533 homotetramer interface [polypeptide binding]; other site 743722004534 substrate binding site [chemical binding]; other site 743722004535 homodimer interface [polypeptide binding]; other site 743722004536 active site 743722004537 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 743722004538 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722004539 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722004540 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722004541 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 743722004542 Cupin domain; Region: Cupin_2; cl09118 743722004543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004544 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722004545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004546 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722004547 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 743722004548 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 743722004549 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 743722004550 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722004551 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722004552 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 743722004553 Flavoprotein; Region: Flavoprotein; cl08021 743722004554 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 743722004555 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 743722004556 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 743722004557 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 743722004558 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722004559 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722004560 Phosphoesterase family; Region: Phosphoesterase; cl15450 743722004561 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 743722004562 Phosphoesterase family; Region: Phosphoesterase; cl15450 743722004563 Domain of unknown function (DUF756); Region: DUF756; pfam05506 743722004564 Domain of unknown function (DUF756); Region: DUF756; pfam05506 743722004565 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004566 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004567 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 743722004568 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 743722004569 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004570 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004571 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004572 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004573 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722004574 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722004575 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 743722004576 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722004577 FecR protein; Region: FecR; pfam04773 743722004578 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004580 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 743722004581 DNA binding residues [nucleotide binding] 743722004582 colanic acid exporter; Provisional; Region: PRK10459 743722004583 MatE; Region: MatE; cl10513 743722004584 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 743722004585 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 743722004586 Mg++ binding site [ion binding]; other site 743722004587 putative catalytic motif [active] 743722004588 substrate binding site [chemical binding]; other site 743722004589 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 743722004590 MatE; Region: MatE; cl10513 743722004591 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 743722004592 active site 743722004593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722004594 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 743722004595 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722004596 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722004597 active site 743722004598 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 743722004599 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722004600 active site 743722004601 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional; Region: PRK09677 743722004602 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 743722004603 trimer interface [polypeptide binding]; other site 743722004604 active site 743722004605 substrate binding site [chemical binding]; other site 743722004606 CoA binding site [chemical binding]; other site 743722004607 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 743722004608 active site 743722004609 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 743722004610 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 743722004611 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 743722004612 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 743722004613 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 743722004614 SLBB domain; Region: SLBB; pfam10531 743722004615 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 743722004616 SLBB domain; Region: SLBB; pfam10531 743722004617 SLBB domain; Region: SLBB; pfam10531 743722004618 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 743722004619 SLBB domain; Region: SLBB; pfam10531 743722004620 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 743722004621 Chain length determinant protein; Region: Wzz; cl15801 743722004622 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 743722004623 Bacterial sugar transferase; Region: Bac_transf; cl00939 743722004624 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 743722004625 MatE; Region: MatE; cl10513 743722004626 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722004627 active site 743722004628 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 743722004629 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722004630 active site 743722004631 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 743722004632 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722004633 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 743722004634 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 743722004635 trimer interface [polypeptide binding]; other site 743722004636 active site 743722004637 substrate binding site [chemical binding]; other site 743722004638 CoA binding site [chemical binding]; other site 743722004639 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl16914 743722004640 ligand binding site [chemical binding]; other site 743722004641 putative catalytic site [active] 743722004642 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722004643 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 743722004644 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 743722004645 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 743722004646 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 743722004647 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 743722004648 Chain length determinant protein; Region: Wzz; cl15801 743722004649 tyrosine kinase; Provisional; Region: PRK11519 743722004650 Chain length determinant protein; Region: Wzz; cl15801 743722004651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722004652 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 743722004653 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 743722004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004655 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 743722004656 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 743722004657 NAD(P) binding site [chemical binding]; other site 743722004658 homodimer interface [polypeptide binding]; other site 743722004659 substrate binding site [chemical binding]; other site 743722004660 active site 743722004661 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 743722004662 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 743722004663 inhibitor-cofactor binding pocket; inhibition site 743722004664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722004665 catalytic residue [active] 743722004666 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 743722004667 putative trimer interface [polypeptide binding]; other site 743722004668 putative CoA binding site [chemical binding]; other site 743722004669 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 743722004670 NeuB family; Region: NeuB; cl00496 743722004671 SAF domain; Region: SAF; cl00555 743722004672 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 743722004673 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 743722004674 active site 743722004675 homodimer interface [polypeptide binding]; other site 743722004676 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 743722004677 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 743722004678 Substrate binding site; other site 743722004679 metal-binding site 743722004680 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 743722004681 ligand binding site; other site 743722004682 tetramer interface; other site 743722004683 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 743722004684 MatE; Region: MatE; cl10513 743722004685 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 743722004686 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 743722004687 putative trimer interface [polypeptide binding]; other site 743722004688 putative CoA binding site [chemical binding]; other site 743722004689 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 743722004690 trimer interface [polypeptide binding]; other site 743722004691 active site 743722004692 substrate binding site [chemical binding]; other site 743722004693 CoA binding site [chemical binding]; other site 743722004694 OpgC protein; Region: OpgC_C; cl00792 743722004695 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722004696 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722004697 active site 743722004698 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 743722004699 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722004700 Right handed beta helix region; Region: Beta_helix; pfam13229 743722004701 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722004702 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 743722004703 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 743722004704 active site 743722004705 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 743722004706 homodimer interface [polypeptide binding]; other site 743722004707 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 743722004708 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722004709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722004710 NAD(P) binding site [chemical binding]; other site 743722004711 active site 743722004712 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 743722004713 putative active site [active] 743722004714 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 743722004715 Mg++ binding site [ion binding]; other site 743722004716 putative catalytic motif [active] 743722004717 putative substrate binding site [chemical binding]; other site 743722004718 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 743722004719 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 743722004720 NAD(P) binding site [chemical binding]; other site 743722004721 homodimer interface [polypeptide binding]; other site 743722004722 substrate binding site [chemical binding]; other site 743722004723 active site 743722004724 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 743722004725 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 743722004726 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 743722004727 oligomeric interface; other site 743722004728 putative active site [active] 743722004729 homodimer interface [polypeptide binding]; other site 743722004730 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722004731 Helix-turn-helix domains; Region: HTH; cl00088 743722004732 OsmC-like protein; Region: OsmC; cl00767 743722004733 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 743722004734 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 743722004735 substrate binding pocket [chemical binding]; other site 743722004736 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 743722004737 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 743722004738 catalytic residues [active] 743722004739 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004740 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004741 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722004742 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 743722004743 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 743722004744 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004745 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 743722004746 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722004747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722004748 active site 743722004749 phosphorylation site [posttranslational modification] 743722004750 intermolecular recognition site; other site 743722004751 dimerization interface [polypeptide binding]; other site 743722004752 LytTr DNA-binding domain; Region: LytTR; cl04498 743722004753 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722004754 Histidine kinase; Region: His_kinase; pfam06580 743722004755 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722004756 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722004757 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722004758 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 743722004759 GIY-YIG motif/motif A; other site 743722004760 putative active site [active] 743722004761 putative metal binding site [ion binding]; other site 743722004762 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004763 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004764 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 743722004765 DNA binding residues [nucleotide binding] 743722004766 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722004767 FecR protein; Region: FecR; pfam04773 743722004768 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722004769 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004770 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004771 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 743722004772 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004773 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 743722004774 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 743722004775 Protein of unknown function (DUF433); Region: DUF433; cl01030 743722004776 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004777 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 743722004778 DNA binding residues [nucleotide binding] 743722004779 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722004780 FecR protein; Region: FecR; pfam04773 743722004781 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004782 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004783 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 743722004784 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 743722004785 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004786 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722004787 Two component regulator propeller; Region: Reg_prop; pfam07494 743722004788 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722004789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722004790 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 743722004791 dimer interface [polypeptide binding]; other site 743722004792 phosphorylation site [posttranslational modification] 743722004793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722004794 ATP binding site [chemical binding]; other site 743722004795 Mg2+ binding site [ion binding]; other site 743722004796 G-X-G motif; other site 743722004797 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722004798 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722004799 active site 743722004800 phosphorylation site [posttranslational modification] 743722004801 intermolecular recognition site; other site 743722004802 dimerization interface [polypeptide binding]; other site 743722004803 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722004804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004805 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004806 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004807 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 743722004808 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 743722004809 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004810 SusD family; Region: SusD; pfam07980 743722004811 Predicted periplasmic protein [Function unknown]; Region: COG3698 743722004812 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 743722004813 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004814 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722004815 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004816 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004817 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 743722004818 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 743722004819 FecR protein; Region: FecR; pfam04773 743722004820 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 743722004821 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004822 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004823 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 743722004824 DNA binding residues [nucleotide binding] 743722004825 Predicted transcriptional regulator [Transcription]; Region: COG2378 743722004826 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 743722004827 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 743722004828 putative active site [active] 743722004829 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722004830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722004831 Walker A/P-loop; other site 743722004832 ATP binding site [chemical binding]; other site 743722004833 Q-loop/lid; other site 743722004834 ABC transporter signature motif; other site 743722004835 Walker B; other site 743722004836 D-loop; other site 743722004837 H-loop/switch region; other site 743722004838 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 743722004839 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 743722004840 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 743722004841 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004842 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004843 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004844 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004845 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 743722004846 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 743722004847 BNR repeat-like domain; Region: BNR_2; pfam13088 743722004848 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 743722004849 Asp-box motif; other site 743722004850 catalytic site [active] 743722004851 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004852 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004853 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 743722004854 DNA binding residues [nucleotide binding] 743722004855 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004856 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 743722004857 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722004858 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 743722004859 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004860 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722004861 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004862 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004863 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 743722004864 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 743722004865 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 743722004866 putative active site [active] 743722004867 catalytic site [active] 743722004868 putative metal binding site [ion binding]; other site 743722004869 oligomer interface [polypeptide binding]; other site 743722004870 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 743722004871 Sulfatase; Region: Sulfatase; cl10460 743722004872 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 743722004873 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722004874 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722004875 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 743722004876 putative dimerization interface [polypeptide binding]; other site 743722004877 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 743722004878 putative ligand binding site [chemical binding]; other site 743722004879 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722004880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004881 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722004882 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722004883 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 743722004884 Carbon starvation protein CstA; Region: CstA; pfam02554 743722004885 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 743722004886 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 743722004887 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 743722004888 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 743722004889 Low-spin heme binding site [chemical binding]; other site 743722004890 D-pathway; other site 743722004891 Putative water exit pathway; other site 743722004892 Binuclear center (active site) [active] 743722004893 K-pathway; other site 743722004894 Putative proton exit pathway; other site 743722004895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 743722004896 Helix-turn-helix domains; Region: HTH; cl00088 743722004897 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 743722004898 dimerization interface [polypeptide binding]; other site 743722004899 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 743722004900 homodimer interface [polypeptide binding]; other site 743722004901 cystathionine beta-lyase; Provisional; Region: PRK07671 743722004902 substrate-cofactor binding pocket; other site 743722004903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722004904 catalytic residue [active] 743722004905 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 743722004906 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 743722004907 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 743722004908 active site 743722004909 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722004910 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004911 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 743722004912 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722004913 FecR protein; Region: FecR; pfam04773 743722004914 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004915 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004916 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 743722004917 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004918 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004919 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722004920 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722004921 active site 743722004922 metal binding site [ion binding]; metal-binding site 743722004923 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722004924 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722004925 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 743722004926 DNA binding residues [nucleotide binding] 743722004927 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722004928 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 743722004929 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 743722004930 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722004931 putative deaminase; Validated; Region: PRK06846 743722004932 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 743722004933 active site 743722004934 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722004935 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722004936 FecR protein; Region: FecR; pfam04773 743722004937 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722004938 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004939 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004940 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 743722004941 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722004942 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722004943 active site 743722004944 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722004945 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722004946 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722004947 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 743722004948 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722004949 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722004950 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 743722004951 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722004952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722004953 active site 743722004954 phosphorylation site [posttranslational modification] 743722004955 intermolecular recognition site; other site 743722004956 dimerization interface [polypeptide binding]; other site 743722004957 LytTr DNA-binding domain; Region: LytTR; cl04498 743722004958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 743722004959 Histidine kinase; Region: HisKA_2; cl06527 743722004960 Histidine kinase-like ATPases; This family includes several ATP-binding 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 743722004961 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 743722004962 Bacterial sugar transferase; Region: Bac_transf; cl00939 743722004963 Cupin domain; Region: Cupin_2; cl09118 743722004964 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 743722004965 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 743722004966 NADP-binding site; other site 743722004967 homotetramer interface [polypeptide binding]; other site 743722004968 substrate binding site [chemical binding]; other site 743722004969 homodimer interface [polypeptide binding]; other site 743722004970 active site 743722004971 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 743722004972 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 743722004973 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 743722004974 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 743722004975 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 743722004976 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 743722004977 trimer interface [polypeptide binding]; other site 743722004978 active site 743722004979 substrate binding site [chemical binding]; other site 743722004980 CoA binding site [chemical binding]; other site 743722004981 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 743722004982 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 743722004983 Core-2/I-Branching enzyme; Region: Branch; pfam02485 743722004984 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 743722004985 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722004986 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 743722004987 putative ADP-binding pocket [chemical binding]; other site 743722004988 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 743722004989 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 743722004990 putative trimer interface [polypeptide binding]; other site 743722004991 putative active site [active] 743722004992 putative substrate binding site [chemical binding]; other site 743722004993 putative CoA binding site [chemical binding]; other site 743722004994 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 743722004995 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 743722004996 putative metal binding site; other site 743722004997 putative glycosyl transferase; Provisional; Region: PRK10307 743722004998 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 743722004999 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 743722005000 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 743722005001 SLBB domain; Region: SLBB; pfam10531 743722005002 Chain length determinant protein; Region: Wzz; cl15801 743722005003 tyrosine kinase; Provisional; Region: PRK11519 743722005004 Chain length determinant protein; Region: Wzz; cl15801 743722005005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722005006 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 743722005007 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 743722005008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005009 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 743722005010 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 743722005011 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722005012 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 743722005013 motif II; other site 743722005014 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722005015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722005016 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 743722005017 DNA binding residues [nucleotide binding] 743722005018 FecR protein; Region: FecR; pfam04773 743722005019 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005020 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005021 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 743722005022 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 743722005023 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722005024 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 743722005025 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 743722005026 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 743722005027 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005028 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005029 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 743722005030 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722005031 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722005032 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005033 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722005034 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722005035 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722005036 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722005037 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005038 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005039 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722005040 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 743722005041 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722005042 Two component regulator propeller; Region: Reg_prop; pfam07494 743722005043 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722005044 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 743722005045 dimer interface [polypeptide binding]; other site 743722005046 phosphorylation site [posttranslational modification] 743722005047 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005048 ATP binding site [chemical binding]; other site 743722005049 Mg2+ binding site [ion binding]; other site 743722005050 G-X-G motif; other site 743722005051 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005053 active site 743722005054 phosphorylation site [posttranslational modification] 743722005055 intermolecular recognition site; other site 743722005056 dimerization interface [polypeptide binding]; other site 743722005057 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722005058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722005059 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 743722005060 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722005061 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722005062 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722005063 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 743722005064 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 743722005065 active site 743722005066 catalytic residues [active] 743722005067 Cupin domain; Region: Cupin_2; cl09118 743722005068 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722005069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722005070 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 743722005071 active site 743722005072 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 743722005073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722005074 DNA-binding site [nucleotide binding]; DNA binding site 743722005075 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722005076 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 743722005077 putative dimerization interface [polypeptide binding]; other site 743722005078 putative ligand binding site [chemical binding]; other site 743722005079 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005080 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005081 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 743722005082 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 743722005083 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722005084 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 743722005085 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 743722005086 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 743722005087 Domain of unknown function (DUF303); Region: DUF303; pfam03629 743722005088 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 743722005089 active site 743722005090 catalytic triad [active] 743722005091 oxyanion hole [active] 743722005092 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 743722005093 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 743722005094 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 743722005095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005096 Sodium:solute symporter family; Region: SSF; cl00456 743722005097 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 743722005098 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 743722005099 ATP binding site [chemical binding]; other site 743722005100 putative Mg++ binding site [ion binding]; other site 743722005101 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 743722005102 nucleotide binding region [chemical binding]; other site 743722005103 ATP-binding site [chemical binding]; other site 743722005104 Helicase associated domain (HA2); Region: HA2; cl04503 743722005105 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 743722005106 Predicted membrane protein [Function unknown]; Region: COG2311 743722005107 Protein of unknown function (DUF418); Region: DUF418; cl12135 743722005108 Protein of unknown function (DUF418); Region: DUF418; cl12135 743722005109 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 743722005110 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 743722005111 active site 743722005112 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 743722005113 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 743722005114 Substrate binding site; other site 743722005115 VanZ like family; Region: VanZ; cl01971 743722005116 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 743722005117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005118 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 743722005119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005120 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722005121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005122 active site 743722005123 phosphorylation site [posttranslational modification] 743722005124 intermolecular recognition site; other site 743722005125 dimerization interface [polypeptide binding]; other site 743722005126 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 743722005127 DNA binding residues [nucleotide binding] 743722005128 dimerization interface [polypeptide binding]; other site 743722005129 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 743722005130 gliding motility associated protien GldN; Region: GldN; TIGR03523 743722005131 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 743722005132 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 743722005133 GldM N-terminal domain; Region: GldM_N; pfam12081 743722005134 GldM C-terminal domain; Region: GldM_C; pfam12080 743722005135 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 743722005136 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 743722005137 NADP binding site [chemical binding]; other site 743722005138 active site 743722005139 putative substrate binding site [chemical binding]; other site 743722005140 OpgC protein; Region: OpgC_C; cl00792 743722005141 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722005142 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 743722005143 MatE; Region: MatE; cl10513 743722005144 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 743722005145 FMN binding site [chemical binding]; other site 743722005146 dimer interface [polypeptide binding]; other site 743722005147 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 743722005148 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 743722005149 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 743722005150 active site 743722005151 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 743722005152 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 743722005153 active site 743722005154 substrate binding site [chemical binding]; other site 743722005155 metal binding site [ion binding]; metal-binding site 743722005156 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 743722005157 non-specific DNA binding site [nucleotide binding]; other site 743722005158 salt bridge; other site 743722005159 sequence-specific DNA binding site [nucleotide binding]; other site 743722005160 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 743722005161 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722005162 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722005163 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722005164 active site 743722005165 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 743722005166 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 743722005167 inhibitor-cofactor binding pocket; inhibition site 743722005168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722005169 catalytic residue [active] 743722005170 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 743722005171 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 743722005172 SLBB domain; Region: SLBB; pfam10531 743722005173 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 743722005174 Chain length determinant protein; Region: Wzz; cl15801 743722005175 tyrosine kinase; Provisional; Region: PRK11519 743722005176 Chain length determinant protein; Region: Wzz; cl15801 743722005177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722005178 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 743722005179 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 743722005180 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722005181 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 743722005182 putative acyl transferase; Provisional; Region: PRK10191 743722005183 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 743722005184 trimer interface [polypeptide binding]; other site 743722005185 active site 743722005186 substrate binding site [chemical binding]; other site 743722005187 CoA binding site [chemical binding]; other site 743722005188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722005189 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 743722005190 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 743722005191 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 743722005192 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 743722005193 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722005194 putative ADP-binding pocket [chemical binding]; other site 743722005195 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722005196 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 743722005197 Bacterial sugar transferase; Region: Bac_transf; cl00939 743722005198 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722005199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005200 active site 743722005201 phosphorylation site [posttranslational modification] 743722005202 intermolecular recognition site; other site 743722005203 dimerization interface [polypeptide binding]; other site 743722005204 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 743722005205 DNA binding residues [nucleotide binding] 743722005206 dimerization interface [polypeptide binding]; other site 743722005207 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005209 active site 743722005210 phosphorylation site [posttranslational modification] 743722005211 intermolecular recognition site; other site 743722005212 dimerization interface [polypeptide binding]; other site 743722005213 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 743722005214 dimer interface [polypeptide binding]; other site 743722005215 phosphorylation site [posttranslational modification] 743722005216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005217 ATP binding site [chemical binding]; other site 743722005218 G-X-G motif; other site 743722005219 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 743722005220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005221 active site 743722005222 phosphorylation site [posttranslational modification] 743722005223 intermolecular recognition site; other site 743722005224 dimerization interface [polypeptide binding]; other site 743722005225 hypothetical protein; Provisional; Region: PRK07877 743722005226 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 743722005227 ATP binding site [chemical binding]; other site 743722005228 substrate interface [chemical binding]; other site 743722005229 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 743722005230 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 743722005231 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 743722005232 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 743722005233 dimer interface [polypeptide binding]; other site 743722005234 phosphorylation site [posttranslational modification] 743722005235 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005236 ATP binding site [chemical binding]; other site 743722005237 Mg2+ binding site [ion binding]; other site 743722005238 G-X-G motif; other site 743722005239 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005241 active site 743722005242 phosphorylation site [posttranslational modification] 743722005243 intermolecular recognition site; other site 743722005244 dimerization interface [polypeptide binding]; other site 743722005245 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722005246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005247 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722005248 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722005249 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722005250 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722005251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005252 active site 743722005253 phosphorylation site [posttranslational modification] 743722005254 intermolecular recognition site; other site 743722005255 dimerization interface [polypeptide binding]; other site 743722005256 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 743722005257 DNA binding site [nucleotide binding] 743722005258 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 743722005259 dimer interface [polypeptide binding]; other site 743722005260 phosphorylation site [posttranslational modification] 743722005261 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005262 ATP binding site [chemical binding]; other site 743722005263 Mg2+ binding site [ion binding]; other site 743722005264 G-X-G motif; other site 743722005265 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005266 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005267 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 743722005268 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 743722005269 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722005270 SusD family; Region: SusD; pfam07980 743722005271 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 743722005272 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722005273 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722005274 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722005275 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722005276 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 743722005277 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722005278 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722005279 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722005280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005281 ATP binding site [chemical binding]; other site 743722005282 Mg2+ binding site [ion binding]; other site 743722005283 G-X-G motif; other site 743722005284 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005286 active site 743722005287 phosphorylation site [posttranslational modification] 743722005288 intermolecular recognition site; other site 743722005289 dimerization interface [polypeptide binding]; other site 743722005290 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 743722005291 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 743722005292 glutaminase active site [active] 743722005293 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 743722005294 dimer interface [polypeptide binding]; other site 743722005295 active site 743722005296 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 743722005297 dimer interface [polypeptide binding]; other site 743722005298 active site 743722005299 Bacterial sugar transferase; Region: Bac_transf; cl00939 743722005300 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 743722005301 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 743722005302 active site 743722005303 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 743722005304 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 743722005305 O-Antigen ligase; Region: Wzy_C; cl04850 743722005306 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722005307 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 743722005308 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 743722005309 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 743722005310 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 743722005311 active site 743722005312 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 743722005313 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 743722005314 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 743722005315 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 743722005316 dimer interface [polypeptide binding]; other site 743722005317 phosphorylation site [posttranslational modification] 743722005318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005319 ATP binding site [chemical binding]; other site 743722005320 Mg2+ binding site [ion binding]; other site 743722005321 G-X-G motif; other site 743722005322 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 743722005323 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 743722005324 dimer interface [polypeptide binding]; other site 743722005325 active site 743722005326 CoA binding pocket [chemical binding]; other site 743722005327 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 743722005328 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 743722005329 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 743722005330 putative catalytic site [active] 743722005331 putative metal binding site [ion binding]; other site 743722005332 putative phosphate binding site [ion binding]; other site 743722005333 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 743722005334 putative substrate binding site [chemical binding]; other site 743722005335 active site 743722005336 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 743722005337 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 743722005338 NADP binding site [chemical binding]; other site 743722005339 active site 743722005340 putative substrate binding site [chemical binding]; other site 743722005341 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 743722005342 dimer interface [polypeptide binding]; other site 743722005343 ADP-ribose binding site [chemical binding]; other site 743722005344 active site 743722005345 nudix motif; other site 743722005346 metal binding site [ion binding]; metal-binding site 743722005347 glycine dehydrogenase; Provisional; Region: PRK05367 743722005348 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 743722005349 tetramer interface [polypeptide binding]; other site 743722005350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722005351 catalytic residue [active] 743722005352 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 743722005353 tetramer interface [polypeptide binding]; other site 743722005354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722005355 catalytic residue [active] 743722005356 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 743722005357 MG2 domain; Region: A2M_N; pfam01835 743722005358 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 743722005359 Malic enzyme, N-terminal domain; Region: malic; pfam00390 743722005360 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 743722005361 putative NAD(P) binding site [chemical binding]; other site 743722005362 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 743722005363 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 743722005364 RuvA N terminal domain; Region: RuvA_N; pfam01330 743722005365 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 743722005366 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722005367 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722005368 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722005369 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722005370 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005371 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005372 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005373 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005374 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005375 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005376 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005377 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005378 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005379 FlgD Ig-like domain; Region: FlgD_ig; cl15790 743722005380 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 743722005381 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 743722005382 binding surface 743722005383 TPR motif; other site 743722005384 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 743722005385 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722005386 ligand binding site [chemical binding]; other site 743722005387 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722005388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005389 active site 743722005390 phosphorylation site [posttranslational modification] 743722005391 intermolecular recognition site; other site 743722005392 dimerization interface [polypeptide binding]; other site 743722005393 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 743722005394 DNA binding residues [nucleotide binding] 743722005395 dimerization interface [polypeptide binding]; other site 743722005396 CheB methylesterase; Region: CheB_methylest; pfam01339 743722005397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722005398 Histidine kinase; Region: His_kinase; pfam06580 743722005399 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005400 ATP binding site [chemical binding]; other site 743722005401 Mg2+ binding site [ion binding]; other site 743722005402 G-X-G motif; other site 743722005403 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 743722005404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005405 active site 743722005406 phosphorylation site [posttranslational modification] 743722005407 intermolecular recognition site; other site 743722005408 dimerization interface [polypeptide binding]; other site 743722005409 LytTr DNA-binding domain; Region: LytTR; cl04498 743722005410 GAF domain; Region: GAF_2; pfam13185 743722005411 GAF domain; Region: GAF; cl15785 743722005412 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722005413 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 743722005414 putative active site [active] 743722005415 heme pocket [chemical binding]; other site 743722005416 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 743722005417 dimer interface [polypeptide binding]; other site 743722005418 phosphorylation site [posttranslational modification] 743722005419 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005420 ATP binding site [chemical binding]; other site 743722005421 Mg2+ binding site [ion binding]; other site 743722005422 G-X-G motif; other site 743722005423 Domain of unknown function (DUF305); Region: DUF305; cl15795 743722005424 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 743722005425 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 743722005426 IHF dimer interface [polypeptide binding]; other site 743722005427 IHF - DNA interface [nucleotide binding]; other site 743722005428 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 743722005429 ligand binding site [chemical binding]; other site 743722005430 flexible hinge region; other site 743722005431 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16920 743722005432 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 743722005433 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 743722005434 dimer interface [polypeptide binding]; other site 743722005435 ADP-ribose binding site [chemical binding]; other site 743722005436 active site 743722005437 nudix motif; other site 743722005438 metal binding site [ion binding]; metal-binding site 743722005439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722005440 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 743722005441 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005443 active site 743722005444 phosphorylation site [posttranslational modification] 743722005445 intermolecular recognition site; other site 743722005446 dimerization interface [polypeptide binding]; other site 743722005447 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 743722005448 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005449 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 743722005450 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 743722005451 N-terminal plug; other site 743722005452 ligand-binding site [chemical binding]; other site 743722005453 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 743722005454 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 743722005455 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 743722005456 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 743722005457 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 743722005458 Domain of unknown function (DUF389); Region: DUF389; cl00781 743722005459 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722005460 active site 743722005461 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 743722005462 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722005463 putative ADP-binding pocket [chemical binding]; other site 743722005464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722005465 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 743722005466 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 743722005467 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 743722005468 dimer interface [polypeptide binding]; other site 743722005469 active site 743722005470 CoA binding pocket [chemical binding]; other site 743722005471 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 743722005472 DNA-binding site [nucleotide binding]; DNA binding site 743722005473 RNA-binding motif; other site 743722005474 Helix-turn-helix domains; Region: HTH; cl00088 743722005475 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 743722005476 active site clefts [active] 743722005477 zinc binding site [ion binding]; other site 743722005478 dimer interface [polypeptide binding]; other site 743722005479 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722005480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722005481 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 743722005482 DNA binding residues [nucleotide binding] 743722005483 AAA domain; Region: AAA_18; pfam13238 743722005484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722005485 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 743722005486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722005487 Coenzyme A binding pocket [chemical binding]; other site 743722005488 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 743722005489 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722005490 Right handed beta helix region; Region: Beta_helix; pfam13229 743722005491 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 743722005492 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 743722005493 CsbD-like; Region: CsbD; cl15799 743722005494 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 743722005495 short chain dehydrogenase; Provisional; Region: PRK06701 743722005496 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 743722005497 NAD binding site [chemical binding]; other site 743722005498 metal binding site [ion binding]; metal-binding site 743722005499 active site 743722005500 Helix-turn-helix domains; Region: HTH; cl00088 743722005501 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 743722005502 putative catalytic site [active] 743722005503 putative metal binding site [ion binding]; other site 743722005504 putative phosphate binding site [ion binding]; other site 743722005505 Family description; Region: VCBS; pfam13517 743722005506 Family description; Region: VCBS; pfam13517 743722005507 Family description; Region: VCBS; pfam13517 743722005508 Family description; Region: VCBS; pfam13517 743722005509 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722005510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005511 active site 743722005512 phosphorylation site [posttranslational modification] 743722005513 intermolecular recognition site; other site 743722005514 dimerization interface [polypeptide binding]; other site 743722005515 Helix-turn-helix domains; Region: HTH; cl00088 743722005516 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 743722005517 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 743722005518 DsrE/DsrF-like family; Region: DrsE; cl00672 743722005519 Cytochrome c [Energy production and conversion]; Region: COG3258 743722005520 Cytochrome c; Region: Cytochrom_C; cl11414 743722005521 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 743722005522 catalytic triad [active] 743722005523 metal binding site [ion binding]; metal-binding site 743722005524 conserved cis-peptide bond; other site 743722005525 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 743722005526 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 743722005527 MOSC domain; Region: MOSC; pfam03473 743722005528 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 743722005529 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 743722005530 CheB methylesterase; Region: CheB_methylest; pfam01339 743722005531 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 743722005532 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; cl16911 743722005533 PAS domain; Region: PAS_10; pfam13596 743722005534 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722005535 PAS fold; Region: PAS_3; pfam08447 743722005536 putative active site [active] 743722005537 heme pocket [chemical binding]; other site 743722005538 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 743722005539 dimer interface [polypeptide binding]; other site 743722005540 phosphorylation site [posttranslational modification] 743722005541 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005542 ATP binding site [chemical binding]; other site 743722005543 Mg2+ binding site [ion binding]; other site 743722005544 G-X-G motif; other site 743722005545 PAS fold; Region: PAS_2; pfam08446 743722005546 GAF domain; Region: GAF; cl15785 743722005547 Phytochrome region; Region: PHY; pfam00360 743722005548 CsbD-like; Region: CsbD; cl15799 743722005549 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 743722005550 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 743722005551 dimer interface [polypeptide binding]; other site 743722005552 active site 743722005553 catalytic residue [active] 743722005554 metal binding site [ion binding]; metal-binding site 743722005555 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 743722005556 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 743722005557 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 743722005558 Membrane transport protein; Region: Mem_trans; cl09117 743722005559 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 743722005560 substrate binding site [chemical binding]; other site 743722005561 active site 743722005562 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722005563 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005564 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005565 active site 743722005566 phosphorylation site [posttranslational modification] 743722005567 intermolecular recognition site; other site 743722005568 dimerization interface [polypeptide binding]; other site 743722005569 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722005570 Helix-turn-helix domains; Region: HTH; cl00088 743722005571 Protein of unknown function (DUF421); Region: DUF421; cl00990 743722005572 Protein of unknown function (DUF421); Region: DUF421; cl00990 743722005573 Protein of unknown function (DUF421); Region: DUF421; cl00990 743722005574 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005576 active site 743722005577 phosphorylation site [posttranslational modification] 743722005578 intermolecular recognition site; other site 743722005579 dimerization interface [polypeptide binding]; other site 743722005580 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 743722005581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005582 NAD(P) binding site [chemical binding]; other site 743722005583 active site 743722005584 glycogen branching enzyme; Provisional; Region: PRK12313 743722005585 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 743722005586 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 743722005587 active site 743722005588 catalytic site [active] 743722005589 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 743722005590 trehalose synthase; Region: treS_nterm; TIGR02456 743722005591 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 743722005592 active site 743722005593 catalytic site [active] 743722005594 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 743722005595 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 743722005596 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 743722005597 active site 743722005598 homodimer interface [polypeptide binding]; other site 743722005599 catalytic site [active] 743722005600 acceptor binding site [chemical binding]; other site 743722005601 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 743722005602 putative dimer interface [polypeptide binding]; other site 743722005603 catalytic triad [active] 743722005604 Domain of unknown function (DUF305); Region: DUF305; cl15795 743722005605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722005606 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 743722005607 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 743722005608 dimanganese center [ion binding]; other site 743722005609 PAS domain; Region: PAS_9; pfam13426 743722005610 PAS domain S-box; Region: sensory_box; TIGR00229 743722005611 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722005612 putative active site [active] 743722005613 heme pocket [chemical binding]; other site 743722005614 GAF domain; Region: GAF_2; pfam13185 743722005615 GAF domain; Region: GAF; cl15785 743722005616 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 743722005617 dimer interface [polypeptide binding]; other site 743722005618 phosphorylation site [posttranslational modification] 743722005619 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005620 ATP binding site [chemical binding]; other site 743722005621 Mg2+ binding site [ion binding]; other site 743722005622 G-X-G motif; other site 743722005623 transketolase; Reviewed; Region: PRK05899 743722005624 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 743722005625 TPP-binding site [chemical binding]; other site 743722005626 dimer interface [polypeptide binding]; other site 743722005627 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 743722005628 PYR/PP interface [polypeptide binding]; other site 743722005629 dimer interface [polypeptide binding]; other site 743722005630 TPP binding site [chemical binding]; other site 743722005631 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 743722005632 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 743722005633 putative active site [active] 743722005634 transaldolase; Provisional; Region: PRK03903 743722005635 catalytic residue [active] 743722005636 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 743722005637 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 743722005638 motif II; other site 743722005639 Motility related/secretion protein; Region: SprA_N; pfam14349 743722005640 Motility related/secretion protein; Region: SprA_N; pfam14349 743722005641 Motility related/secretion protein; Region: SprA_N; pfam14349 743722005642 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 743722005643 lipoyl attachment site [posttranslational modification]; other site 743722005644 VanZ like family; Region: VanZ; cl01971 743722005645 FeoA domain; Region: FeoA; cl00838 743722005646 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 743722005647 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 743722005648 G1 box; other site 743722005649 GTP/Mg2+ binding site [chemical binding]; other site 743722005650 Switch I region; other site 743722005651 G2 box; other site 743722005652 G3 box; other site 743722005653 Switch II region; other site 743722005654 G4 box; other site 743722005655 G5 box; other site 743722005656 Nucleoside recognition; Region: Gate; cl00486 743722005657 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 743722005658 Nucleoside recognition; Region: Gate; cl00486 743722005659 SprT-like family; Region: SprT-like; pfam10263 743722005660 Protein of unknown function, DUF480; Region: DUF480; cl01209 743722005661 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 743722005662 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 743722005663 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 743722005664 pyruvate dehydrogenase; Provisional; Region: PRK06546 743722005665 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 743722005666 PYR/PP interface [polypeptide binding]; other site 743722005667 tetramer interface [polypeptide binding]; other site 743722005668 dimer interface [polypeptide binding]; other site 743722005669 TPP binding site [chemical binding]; other site 743722005670 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 743722005671 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 743722005672 TPP-binding site [chemical binding]; other site 743722005673 NADH dehydrogenase; Region: NADHdh; cl00469 743722005674 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 743722005675 4Fe-4S binding domain; Region: Fer4; cl02805 743722005676 4Fe-4S binding domain; Region: Fer4; cl02805 743722005677 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 743722005678 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 743722005679 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 743722005680 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 743722005681 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 743722005682 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722005683 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 743722005684 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722005685 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 743722005686 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722005687 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 743722005688 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 743722005689 active site 743722005690 amidophosphoribosyltransferase; Provisional; Region: PRK09246 743722005691 LysE type translocator; Region: LysE; cl00565 743722005692 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 743722005693 catalytic motif [active] 743722005694 Zn binding site [ion binding]; other site 743722005695 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 743722005696 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 743722005697 S-adenosylmethionine binding site [chemical binding]; other site 743722005698 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 743722005699 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 743722005700 Ferritin-like domain; Region: Ferritin; pfam00210 743722005701 ferroxidase diiron center [ion binding]; other site 743722005702 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005703 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722005704 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722005705 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722005706 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 743722005707 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722005708 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 743722005709 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 743722005710 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 743722005711 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 743722005712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 743722005713 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 743722005714 binding surface 743722005715 TPR motif; other site 743722005716 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 743722005717 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 743722005718 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 743722005719 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 743722005720 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 743722005721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005722 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722005723 active site 743722005724 Protein of unknown function (DUF983); Region: DUF983; cl02211 743722005725 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 743722005726 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 743722005727 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 743722005728 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 743722005729 substrate binding site [chemical binding]; other site 743722005730 ligand binding site [chemical binding]; other site 743722005731 Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes...; Region: AcnA_Mitochon_Swivel; cd01578 743722005732 substrate binding site [chemical binding]; other site 743722005733 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 743722005734 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 743722005735 GMP synthase; Reviewed; Region: guaA; PRK00074 743722005736 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 743722005737 AMP/PPi binding site [chemical binding]; other site 743722005738 candidate oxyanion hole; other site 743722005739 catalytic triad [active] 743722005740 potential glutamine specificity residues [chemical binding]; other site 743722005741 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 743722005742 ATP Binding subdomain [chemical binding]; other site 743722005743 Ligand Binding sites [chemical binding]; other site 743722005744 Dimerization subdomain; other site 743722005745 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 743722005746 ligand binding site [chemical binding]; other site 743722005747 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; cl16911 743722005748 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 743722005749 MarC family integral membrane protein; Region: MarC; cl00919 743722005750 amino acid transporter; Region: 2A0306; TIGR00909 743722005751 Spore germination protein; Region: Spore_permease; cl15802 743722005752 Spore germination protein; Region: Spore_permease; cl15802 743722005753 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 743722005754 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 743722005755 L-type amino acid transporter; Region: 2A0308; TIGR00911 743722005756 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 743722005757 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 743722005758 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 743722005759 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 743722005760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722005761 active site 743722005762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 743722005763 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 743722005764 active site 743722005765 Predicted dehydrogenase [General function prediction only]; Region: COG0579 743722005766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005767 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722005768 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722005769 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 743722005770 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722005771 ATP binding site [chemical binding]; other site 743722005772 Mg2+ binding site [ion binding]; other site 743722005773 G-X-G motif; other site 743722005774 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005776 active site 743722005777 phosphorylation site [posttranslational modification] 743722005778 intermolecular recognition site; other site 743722005779 dimerization interface [polypeptide binding]; other site 743722005780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722005781 Response regulator receiver domain; Region: Response_reg; pfam00072 743722005782 active site 743722005783 phosphorylation site [posttranslational modification] 743722005784 intermolecular recognition site; other site 743722005785 dimerization interface [polypeptide binding]; other site 743722005786 cyclase homology domain; Region: CHD; cd07302 743722005787 nucleotidyl binding site; other site 743722005788 metal binding site [ion binding]; metal-binding site 743722005789 dimer interface [polypeptide binding]; other site 743722005790 Uncharacterized conserved protein [Function unknown]; Region: COG1284 743722005791 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 743722005792 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 743722005793 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722005794 Zn2+ binding site [ion binding]; other site 743722005795 Mg2+ binding site [ion binding]; other site 743722005796 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722005797 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722005798 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 743722005799 DNA binding residues [nucleotide binding] 743722005800 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722005801 FecR protein; Region: FecR; pfam04773 743722005802 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005803 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005804 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722005805 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 743722005806 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722005807 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722005808 Cupin domain; Region: Cupin_2; cl09118 743722005809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722005810 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 743722005811 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 743722005812 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722005813 Proline dehydrogenase; Region: Pro_dh; cl03282 743722005814 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 743722005815 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 743722005816 active site 743722005817 dimer interface [polypeptide binding]; other site 743722005818 metal binding site [ion binding]; metal-binding site 743722005819 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 743722005820 threonine dehydratase; Validated; Region: PRK08639 743722005821 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 743722005822 tetramer interface [polypeptide binding]; other site 743722005823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722005824 catalytic residue [active] 743722005825 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 743722005826 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 743722005827 tartrate dehydrogenase; Provisional; Region: PRK08194 743722005828 2-isopropylmalate synthase; Validated; Region: PRK00915 743722005829 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 743722005830 active site 743722005831 catalytic residues [active] 743722005832 metal binding site [ion binding]; metal-binding site 743722005833 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 743722005834 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 743722005835 substrate binding site [chemical binding]; other site 743722005836 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 743722005837 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 743722005838 substrate binding site [chemical binding]; other site 743722005839 ligand binding site [chemical binding]; other site 743722005840 2-isopropylmalate synthase; Validated; Region: PRK00915 743722005841 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 743722005842 active site 743722005843 catalytic residues [active] 743722005844 metal binding site [ion binding]; metal-binding site 743722005845 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 743722005846 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 743722005847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722005848 Walker A/P-loop; other site 743722005849 ATP binding site [chemical binding]; other site 743722005850 Q-loop/lid; other site 743722005851 ABC transporter signature motif; other site 743722005852 Walker B; other site 743722005853 D-loop; other site 743722005854 H-loop/switch region; other site 743722005855 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 743722005856 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722005857 Walker A/P-loop; other site 743722005858 ATP binding site [chemical binding]; other site 743722005859 Q-loop/lid; other site 743722005860 ABC transporter signature motif; other site 743722005861 Walker B; other site 743722005862 D-loop; other site 743722005863 H-loop/switch region; other site 743722005864 ketol-acid reductoisomerase; Validated; Region: PRK05225 743722005865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005866 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 743722005867 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 743722005868 DinB superfamily; Region: DinB_2; pfam12867 743722005869 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 743722005870 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 743722005871 putative valine binding site [chemical binding]; other site 743722005872 dimer interface [polypeptide binding]; other site 743722005873 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 743722005874 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 743722005875 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 743722005876 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 743722005877 PYR/PP interface [polypeptide binding]; other site 743722005878 dimer interface [polypeptide binding]; other site 743722005879 TPP binding site [chemical binding]; other site 743722005880 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 743722005881 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 743722005882 TPP-binding site [chemical binding]; other site 743722005883 dimer interface [polypeptide binding]; other site 743722005884 Dehydratase family; Region: ILVD_EDD; cl00340 743722005885 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 743722005886 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 743722005887 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 743722005888 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 743722005889 alpha subunit interaction interface [polypeptide binding]; other site 743722005890 Walker A motif; other site 743722005891 ATP binding site [chemical binding]; other site 743722005892 Walker B motif; other site 743722005893 inhibitor binding site; inhibition site 743722005894 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 743722005895 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 743722005896 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 743722005897 NADP binding site [chemical binding]; other site 743722005898 active site 743722005899 putative substrate binding site [chemical binding]; other site 743722005900 Transglycosylase; Region: Transgly; cl07896 743722005901 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 743722005902 active site 743722005903 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 743722005904 Sodium:solute symporter family; Region: SSF; cl00456 743722005905 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 743722005906 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 743722005907 inhibitor site; inhibition site 743722005908 active site 743722005909 dimer interface [polypeptide binding]; other site 743722005910 catalytic residue [active] 743722005911 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722005912 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 743722005913 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005914 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005915 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722005916 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722005917 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 743722005918 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 743722005919 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 743722005920 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005921 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005922 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 743722005923 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 743722005924 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722005925 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722005926 Pectate lyase; Region: Pec_lyase_C; cl01593 743722005927 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 743722005928 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 743722005929 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 743722005930 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722005931 active site 743722005932 BNR repeat-like domain; Region: BNR_2; pfam13088 743722005933 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005934 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722005935 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722005936 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 743722005937 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 743722005938 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722005939 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 743722005940 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 743722005941 BNR repeat-like domain; Region: BNR_2; pfam13088 743722005942 catalytic site [active] 743722005943 Asp-box motif; other site 743722005944 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 743722005945 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 743722005946 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 743722005947 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722005948 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005949 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; cl00257 743722005950 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 743722005951 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722005952 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722005953 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722005954 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005955 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722005956 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722005957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722005958 DNA-binding site [nucleotide binding]; DNA binding site 743722005959 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 743722005960 putative dimerization interface [polypeptide binding]; other site 743722005961 putative ligand binding site [chemical binding]; other site 743722005962 Right handed beta helix region; Region: Beta_helix; pfam13229 743722005963 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722005964 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722005965 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 743722005966 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 743722005967 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722005968 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722005969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005970 putative transporter; Provisional; Region: PRK10484 743722005971 Sodium:solute symporter family; Region: SSF; cl00456 743722005972 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722005973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 743722005974 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722005975 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722005976 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 743722005977 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005978 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722005979 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722005980 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 743722005981 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 743722005982 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 743722005983 CoA-transferase family III; Region: CoA_transf_3; pfam02515 743722005984 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 743722005985 CoA-transferase family III; Region: CoA_transf_3; pfam02515 743722005986 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 743722005987 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 743722005988 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722005989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722005990 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 743722005991 active site 2 [active] 743722005992 active site 1 [active] 743722005993 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722005994 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 743722005995 putative substrate translocation pore; other site 743722005996 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722005997 sugar binding site [chemical binding]; other site 743722005998 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722005999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 743722006000 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 743722006001 Domain of unknown function (DUF303); Region: DUF303; pfam03629 743722006002 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 743722006003 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 743722006004 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 743722006005 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 743722006006 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 743722006007 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 743722006008 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 743722006009 Walker A motif; other site 743722006010 ATP binding site [chemical binding]; other site 743722006011 Walker B motif; other site 743722006012 arginine finger; other site 743722006013 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 743722006014 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 743722006015 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 743722006016 Protein of unknown function (DUF904); Region: DUF904; cl11531 743722006017 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 743722006018 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006019 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006020 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722006021 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722006022 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 743722006023 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722006024 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 743722006025 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 743722006026 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722006027 ligand binding site [chemical binding]; other site 743722006028 Cysteine-rich domain; Region: CCG; pfam02754 743722006029 Cysteine-rich domain; Region: CCG; pfam02754 743722006030 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 743722006031 4Fe-4S binding domain; Region: Fer4; cl02805 743722006032 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 743722006033 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722006034 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722006035 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 743722006036 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_31; cd04690 743722006037 nudix motif; other site 743722006038 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 743722006039 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 743722006040 classical (c) SDRs; Region: SDR_c; cd05233 743722006041 NAD(P) binding site [chemical binding]; other site 743722006042 active site 743722006043 Helix-turn-helix domains; Region: HTH; cl00088 743722006044 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 743722006045 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 743722006046 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 743722006047 Ligand Binding Site [chemical binding]; other site 743722006048 NlpE N-terminal domain; Region: NlpE; cl01138 743722006049 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 743722006050 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722006051 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006052 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006053 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006054 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 743722006055 thymidine kinase; Provisional; Region: PRK04296 743722006056 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 743722006057 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 743722006058 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 743722006059 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722006060 rod shape-determining protein MreC; Provisional; Region: PRK13922 743722006061 rod shape-determining protein MreC; Region: MreC; pfam04085 743722006062 rod shape-determining protein MreB; Provisional; Region: PRK13927 743722006063 Cell division protein FtsA; Region: FtsA; cl11496 743722006064 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 743722006065 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 743722006066 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 743722006067 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 743722006068 purine monophosphate binding site [chemical binding]; other site 743722006069 dimer interface [polypeptide binding]; other site 743722006070 putative catalytic residues [active] 743722006071 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 743722006072 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 743722006073 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722006074 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 743722006075 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 743722006076 active site 743722006077 substrate binding site [chemical binding]; other site 743722006078 cosubstrate binding site; other site 743722006079 catalytic site [active] 743722006080 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722006081 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 743722006082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722006083 active site 743722006084 phosphorylation site [posttranslational modification] 743722006085 intermolecular recognition site; other site 743722006086 dimerization interface [polypeptide binding]; other site 743722006087 LytTr DNA-binding domain; Region: LytTR; cl04498 743722006088 Histidine kinase; Region: His_kinase; pfam06580 743722006089 Histidine kinase-like ATPases; This family includes several ATP-binding 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 743722006090 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 743722006091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 743722006092 Putative glucoamylase; Region: Glycoamylase; pfam10091 743722006093 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 743722006094 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 743722006095 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 743722006096 putative substrate translocation pore; other site 743722006097 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 743722006098 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 743722006099 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 743722006100 Catalytic site [active] 743722006101 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 743722006102 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 743722006103 active site 743722006104 DNA binding site [nucleotide binding] 743722006105 Int/Topo IB signature motif; other site 743722006106 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 743722006107 30S subunit binding site; other site 743722006108 elongation factor Tu; Reviewed; Region: PRK12735 743722006109 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 743722006110 G1 box; other site 743722006111 GEF interaction site [polypeptide binding]; other site 743722006112 GTP/Mg2+ binding site [chemical binding]; other site 743722006113 Switch I region; other site 743722006114 G2 box; other site 743722006115 G3 box; other site 743722006116 Switch II region; other site 743722006117 G4 box; other site 743722006118 G5 box; other site 743722006119 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 743722006120 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 743722006121 Antibiotic Binding Site [chemical binding]; other site 743722006122 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 743722006123 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 743722006124 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 743722006125 putative homodimer interface [polypeptide binding]; other site 743722006126 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 743722006127 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 743722006128 23S rRNA interface [nucleotide binding]; other site 743722006129 L7/L12 interface [polypeptide binding]; other site 743722006130 putative thiostrepton binding site; other site 743722006131 L25 interface [polypeptide binding]; other site 743722006132 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 743722006133 mRNA/rRNA interface [nucleotide binding]; other site 743722006134 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 743722006135 23S rRNA interface [nucleotide binding]; other site 743722006136 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 743722006137 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 743722006138 core dimer interface [polypeptide binding]; other site 743722006139 peripheral dimer interface [polypeptide binding]; other site 743722006140 L10 interface [polypeptide binding]; other site 743722006141 L11 interface [polypeptide binding]; other site 743722006142 putative EF-Tu interaction site [polypeptide binding]; other site 743722006143 putative EF-G interaction site [polypeptide binding]; other site 743722006144 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 743722006145 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 743722006146 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 743722006147 RPB11 interaction site [polypeptide binding]; other site 743722006148 RPB12 interaction site [polypeptide binding]; other site 743722006149 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 743722006150 RPB3 interaction site [polypeptide binding]; other site 743722006151 RPB1 interaction site [polypeptide binding]; other site 743722006152 RPB11 interaction site [polypeptide binding]; other site 743722006153 RPB10 interaction site [polypeptide binding]; other site 743722006154 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 743722006155 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 743722006156 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 743722006157 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 743722006158 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 743722006159 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 743722006160 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 743722006161 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 743722006162 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 743722006163 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 743722006164 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 743722006165 DNA binding site [nucleotide binding] 743722006166 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 743722006167 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 743722006168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006169 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 743722006170 NAD(P) binding site [chemical binding]; other site 743722006171 active site 743722006172 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 743722006173 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 743722006174 dimer interface [polypeptide binding]; other site 743722006175 putative anticodon binding site; other site 743722006176 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 743722006177 motif 1; other site 743722006178 active site 743722006179 motif 2; other site 743722006180 motif 3; other site 743722006181 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722006182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722006183 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 743722006184 DNA binding residues [nucleotide binding] 743722006185 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722006186 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722006187 ligand binding site [chemical binding]; other site 743722006188 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 743722006189 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 743722006190 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 743722006191 dimerization interface 3.5A [polypeptide binding]; other site 743722006192 active site 743722006193 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722006194 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722006195 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. 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 organic...; Region: ABCC_MsbA; cd03251 743722006196 Walker A/P-loop; other site 743722006197 ATP binding site [chemical binding]; other site 743722006198 Q-loop/lid; other site 743722006199 ABC transporter signature motif; other site 743722006200 Walker B; other site 743722006201 D-loop; other site 743722006202 H-loop/switch region; other site 743722006203 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 743722006204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006205 CoA-ligase; Region: Ligase_CoA; cl02894 743722006206 methionine sulfoxide reductase B; Provisional; Region: PRK05508 743722006207 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 743722006208 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722006209 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722006210 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 743722006211 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722006212 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 743722006213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722006214 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 743722006215 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 743722006216 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 743722006217 active site 743722006218 NTP binding site [chemical binding]; other site 743722006219 metal binding triad [ion binding]; metal-binding site 743722006220 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 743722006221 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722006222 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722006223 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 743722006224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722006225 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 743722006226 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 743722006227 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 743722006228 trimer interface [polypeptide binding]; other site 743722006229 active site 743722006230 substrate binding site [chemical binding]; other site 743722006231 CoA binding site [chemical binding]; other site 743722006232 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 743722006233 putative active site [active] 743722006234 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 743722006235 PAP2_like_4 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_4; cd03395 743722006236 active site 743722006237 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 743722006238 RNA binding surface [nucleotide binding]; other site 743722006239 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 743722006240 Substrate binding site; other site 743722006241 metal-binding site 743722006242 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 743722006243 Substrate binding site; other site 743722006244 metal-binding site 743722006245 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722006246 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 743722006247 active site 743722006248 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 743722006249 intersubunit interface [polypeptide binding]; other site 743722006250 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 743722006251 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 743722006252 Probable Catalytic site; other site 743722006253 metal-binding site 743722006254 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 743722006255 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 743722006256 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 743722006257 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 743722006258 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 743722006259 Family description; Region: VCBS; pfam13517 743722006260 Family description; Region: VCBS; pfam13517 743722006261 Family description; Region: VCBS; pfam13517 743722006262 Family description; Region: VCBS; pfam13517 743722006263 Family description; Region: VCBS; pfam13517 743722006264 hypothetical protein; Validated; Region: PRK09039 743722006265 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722006266 ligand binding site [chemical binding]; other site 743722006267 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722006268 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722006269 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006270 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006271 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 743722006272 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 743722006273 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 743722006274 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006275 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006276 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 743722006277 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 743722006278 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 743722006279 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006280 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 743722006281 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006282 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006283 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 743722006284 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006285 Short C-terminal domain; Region: SHOCT; cl01373 743722006286 Protein of unknown function, DUF481; Region: DUF481; cl01213 743722006287 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 743722006288 NADH(P)-binding; Region: NAD_binding_10; pfam13460 743722006289 NAD binding site [chemical binding]; other site 743722006290 active site 743722006291 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722006292 Helix-turn-helix domains; Region: HTH; cl00088 743722006293 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 743722006294 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 743722006295 META domain; Region: META; cl01245 743722006296 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 743722006297 periplasmic chaperone; Provisional; Region: PRK10780 743722006298 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 743722006299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722006300 ATP binding site [chemical binding]; other site 743722006301 Mg2+ binding site [ion binding]; other site 743722006302 G-X-G motif; other site 743722006303 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 743722006304 anchoring element; other site 743722006305 dimer interface [polypeptide binding]; other site 743722006306 ATP binding site [chemical binding]; other site 743722006307 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 743722006308 active site 743722006309 putative metal-binding site [ion binding]; other site 743722006310 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 743722006311 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 743722006312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722006313 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 743722006314 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722006315 active site 743722006316 HIGH motif; other site 743722006317 nucleotide binding site [chemical binding]; other site 743722006318 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 743722006319 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 743722006320 active site 743722006321 KMSKS motif; other site 743722006322 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 743722006323 tRNA binding surface [nucleotide binding]; other site 743722006324 anticodon binding site; other site 743722006325 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 743722006326 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 743722006327 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 743722006328 DNA polymerase III, delta subunit; Region: holA; TIGR01128 743722006329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722006330 Helix-turn-helix domains; Region: HTH; cl00088 743722006331 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 743722006332 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722006333 Walker A/P-loop; other site 743722006334 ATP binding site [chemical binding]; other site 743722006335 Q-loop/lid; other site 743722006336 ABC transporter signature motif; other site 743722006337 Walker B; other site 743722006338 D-loop; other site 743722006339 H-loop/switch region; other site 743722006340 ABC transporter; Region: ABC_tran_2; pfam12848 743722006341 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 743722006342 Predicted amidohydrolase [General function prediction only]; Region: COG0388 743722006343 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 743722006344 putative active site [active] 743722006345 catalytic triad [active] 743722006346 putative dimer interface [polypeptide binding]; other site 743722006347 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 743722006348 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 743722006349 Walker A motif; other site 743722006350 ATP binding site [chemical binding]; other site 743722006351 Walker B motif; other site 743722006352 arginine finger; other site 743722006353 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 743722006354 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 743722006355 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722006356 Ligand binding site; other site 743722006357 Putative Catalytic site; other site 743722006358 DXD motif; other site 743722006359 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 743722006360 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 743722006361 putative substrate translocation pore; other site 743722006362 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 743722006363 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 743722006364 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 743722006365 acetyl-CoA C-acetyltransferase; Region: PLN02644 743722006366 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 743722006367 dimer interface [polypeptide binding]; other site 743722006368 active site 743722006369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 743722006370 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 743722006371 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 743722006372 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 743722006373 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 743722006374 Zn2+ binding site [ion binding]; other site 743722006375 Mg2+ binding site [ion binding]; other site 743722006376 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722006377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006378 NAD(P) binding site [chemical binding]; other site 743722006379 active site 743722006380 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 743722006381 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722006382 Helix-turn-helix domains; Region: HTH; cl00088 743722006383 Inner membrane protein CreD; Region: CreD; cl01844 743722006384 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 743722006385 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006386 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722006387 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 743722006388 N-terminal plug; other site 743722006389 ligand-binding site [chemical binding]; other site 743722006390 Helix-turn-helix domains; Region: HTH; cl00088 743722006391 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722006392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722006393 Coenzyme A binding pocket [chemical binding]; other site 743722006394 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 743722006395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006396 NAD(P) binding site [chemical binding]; other site 743722006397 active site 743722006398 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722006399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722006400 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722006401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722006402 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 743722006403 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722006404 FecR protein; Region: FecR; pfam04773 743722006405 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006406 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006407 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 743722006408 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006409 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006410 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722006411 active site 743722006412 metal binding site [ion binding]; metal-binding site 743722006413 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722006414 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722006415 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 743722006416 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722006417 FecR protein; Region: FecR; pfam04773 743722006418 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006419 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006420 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722006421 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 743722006422 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722006423 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006424 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006425 EamA-like transporter family; Region: EamA; cl01037 743722006426 Cupin domain; Region: Cupin_2; cl09118 743722006427 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722006428 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722006429 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 743722006430 Endonuclease I; Region: Endonuclease_1; cl01003 743722006431 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 743722006432 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 743722006433 heme-binding site [chemical binding]; other site 743722006434 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 743722006435 FAD binding pocket [chemical binding]; other site 743722006436 FAD binding motif [chemical binding]; other site 743722006437 phosphate binding motif [ion binding]; other site 743722006438 beta-alpha-beta structure motif; other site 743722006439 NAD binding pocket [chemical binding]; other site 743722006440 Heme binding pocket [chemical binding]; other site 743722006441 Rrf2 family protein; Region: rrf2_super; TIGR00738 743722006442 Helix-turn-helix domains; Region: HTH; cl00088 743722006443 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 743722006444 active site 743722006445 catalytic triad [active] 743722006446 oxyanion hole [active] 743722006447 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 743722006448 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 743722006449 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 743722006450 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 743722006451 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 743722006452 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 743722006453 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 743722006454 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722006455 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 743722006456 active site 743722006457 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; cl16911 743722006458 Hef nuclease; Provisional; Region: PRK13766 743722006459 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 743722006460 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 743722006461 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 743722006462 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722006463 Beta-Casp domain; Region: Beta-Casp; cl12567 743722006464 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 743722006465 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 743722006466 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722006467 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 743722006468 Walker A/P-loop; other site 743722006469 ATP binding site [chemical binding]; other site 743722006470 Q-loop/lid; other site 743722006471 ABC transporter signature motif; other site 743722006472 Walker B; other site 743722006473 D-loop; other site 743722006474 H-loop/switch region; other site 743722006475 Uncharacterized conserved protein [Function unknown]; Region: COG1912 743722006476 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 743722006477 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 743722006478 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722006479 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 743722006480 ATP binding site [chemical binding]; other site 743722006481 active site 743722006482 substrate binding site [chemical binding]; other site 743722006483 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 743722006484 anti sigma factor interaction site; other site 743722006485 regulatory phosphorylation site [posttranslational modification]; other site 743722006486 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722006487 mce related protein; Region: MCE; pfam02470 743722006488 Proteins of 100 residues with WXG; Region: WXG100; cl02005 743722006489 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 743722006490 active site 743722006491 metal binding site [ion binding]; metal-binding site 743722006492 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 743722006493 active site 743722006494 metal binding site [ion binding]; metal-binding site 743722006495 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 743722006496 competence damage-inducible protein A; Provisional; Region: PRK00549 743722006497 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 743722006498 putative MPT binding site; other site 743722006499 Competence-damaged protein; Region: CinA; cl00666 743722006500 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 743722006501 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 743722006502 E3 interaction surface; other site 743722006503 lipoyl attachment site [posttranslational modification]; other site 743722006504 e3 binding domain; Region: E3_binding; pfam02817 743722006505 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 743722006506 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 743722006507 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 743722006508 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 743722006509 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 743722006510 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 743722006511 RNA binding site [nucleotide binding]; other site 743722006512 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 743722006513 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 743722006514 PspC domain; Region: PspC; cl00864 743722006515 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cl02529 743722006516 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006517 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 743722006518 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722006519 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006520 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 743722006521 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 743722006522 N-terminal plug; other site 743722006523 ligand-binding site [chemical binding]; other site 743722006524 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006525 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 743722006526 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 743722006527 N-terminal plug; other site 743722006528 ligand-binding site [chemical binding]; other site 743722006529 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 743722006530 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 743722006531 active site 743722006532 Int/Topo IB signature motif; other site 743722006533 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 743722006534 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 743722006535 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 743722006536 NAD(P) binding site [chemical binding]; other site 743722006537 active site 743722006538 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 743722006539 Sel1 repeat; Region: Sel1; cl02723 743722006540 Sel1 repeat; Region: Sel1; cl02723 743722006541 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722006542 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722006543 active site 743722006544 metal binding site [ion binding]; metal-binding site 743722006545 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 743722006546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722006547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722006548 active site 743722006549 phosphorylation site [posttranslational modification] 743722006550 intermolecular recognition site; other site 743722006551 dimerization interface [polypeptide binding]; other site 743722006552 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 743722006553 DNA binding site [nucleotide binding] 743722006554 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 743722006555 dimer interface [polypeptide binding]; other site 743722006556 phosphorylation site [posttranslational modification] 743722006557 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722006558 ATP binding site [chemical binding]; other site 743722006559 Mg2+ binding site [ion binding]; other site 743722006560 G-X-G motif; other site 743722006561 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 743722006562 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 743722006563 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 743722006564 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 743722006565 Integral membrane protein TerC family; Region: TerC; cl10468 743722006566 probable methyltransferase; Region: TIGR03438 743722006567 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 743722006568 TIGR03440 family protein; Region: unchr_TIGR03440 743722006569 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 743722006570 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 743722006571 dimer interface [polypeptide binding]; other site 743722006572 conserved gate region; other site 743722006573 putative PBP binding loops; other site 743722006574 ABC-ATPase subunit interface; other site 743722006575 NMT1-like family; Region: NMT1_2; cl15260 743722006576 NMT1-like family; Region: NMT1_2; cl15260 743722006577 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 743722006578 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 743722006579 Walker A/P-loop; other site 743722006580 ATP binding site [chemical binding]; other site 743722006581 Q-loop/lid; other site 743722006582 ABC transporter signature motif; other site 743722006583 Walker B; other site 743722006584 D-loop; other site 743722006585 H-loop/switch region; other site 743722006586 mercuric reductase; Validated; Region: PRK06370 743722006587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006588 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722006589 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 743722006590 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 743722006591 active site 743722006592 FMN binding site [chemical binding]; other site 743722006593 substrate binding site [chemical binding]; other site 743722006594 homotetramer interface [polypeptide binding]; other site 743722006595 catalytic residue [active] 743722006596 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722006597 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722006598 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722006599 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 743722006600 N-terminal plug; other site 743722006601 ligand-binding site [chemical binding]; other site 743722006602 Pectate lyase; Region: Pec_lyase_C; cl01593 743722006603 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 743722006604 LysE type translocator; Region: LysE; cl00565 743722006605 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 743722006606 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 743722006607 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 743722006608 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 743722006609 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 743722006610 active site 743722006611 DNA binding site [nucleotide binding] 743722006612 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 743722006613 DNA binding site [nucleotide binding] 743722006614 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 743722006615 nucleotide binding site [chemical binding]; other site 743722006616 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722006617 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 743722006618 putative hydrophobic ligand binding site [chemical binding]; other site 743722006619 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 743722006620 putative hydrophobic ligand binding site [chemical binding]; other site 743722006621 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 743722006622 conserved cys residue [active] 743722006623 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722006624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722006625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006626 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 743722006627 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 743722006628 [2Fe-2S] cluster binding site [ion binding]; other site 743722006629 Protein of unknown function (DUF419); Region: DUF419; cl15265 743722006630 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 743722006631 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722006632 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 743722006633 MerC mercury resistance protein; Region: MerC; cl03934 743722006634 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 743722006635 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 743722006636 Walker A/P-loop; other site 743722006637 ATP binding site [chemical binding]; other site 743722006638 Q-loop/lid; other site 743722006639 ABC transporter signature motif; other site 743722006640 Walker B; other site 743722006641 D-loop; other site 743722006642 H-loop/switch region; other site 743722006643 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722006644 FtsX-like permease family; Region: FtsX; cl15850 743722006645 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 743722006646 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722006647 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 743722006648 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 743722006649 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 743722006650 dimer interface [polypeptide binding]; other site 743722006651 active site 743722006652 heme binding site [chemical binding]; other site 743722006653 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 743722006654 Helix-turn-helix domains; Region: HTH; cl00088 743722006655 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 743722006656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722006657 Coenzyme A binding pocket [chemical binding]; other site 743722006658 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 743722006659 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722006660 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 743722006661 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 743722006662 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722006663 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 743722006664 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 743722006665 RNAase interaction site [polypeptide binding]; other site 743722006666 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 743722006667 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 743722006668 active site 743722006669 motif I; other site 743722006670 motif II; other site 743722006671 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722006672 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 743722006673 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 743722006674 active site 743722006675 homotetramer interface [polypeptide binding]; other site 743722006676 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 743722006677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006678 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 743722006679 Helix-turn-helix domains; Region: HTH; cl00088 743722006680 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722006681 FtsX-like permease family; Region: FtsX; cl15850 743722006682 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722006683 FtsX-like permease family; Region: FtsX; cl15850 743722006684 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722006685 Pirin-related protein [General function prediction only]; Region: COG1741 743722006686 Cupin domain; Region: Cupin_2; cl09118 743722006687 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 743722006688 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 743722006689 ligand binding site [chemical binding]; other site 743722006690 flexible hinge region; other site 743722006691 Helix-turn-helix domains; Region: HTH; cl00088 743722006692 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722006693 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 743722006694 Helix-turn-helix domains; Region: HTH; cl00088 743722006695 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 743722006696 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 743722006697 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 743722006698 hexamer (dimer of trimers) interface [polypeptide binding]; other site 743722006699 substrate binding site [chemical binding]; other site 743722006700 trimer interface [polypeptide binding]; other site 743722006701 Mn binding site [ion binding]; other site 743722006702 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 743722006703 TPP-binding site [chemical binding]; other site 743722006704 dimer interface [polypeptide binding]; other site 743722006705 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 743722006706 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 743722006707 PYR/PP interface [polypeptide binding]; other site 743722006708 dimer interface [polypeptide binding]; other site 743722006709 TPP binding site [chemical binding]; other site 743722006710 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 743722006711 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 743722006712 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 743722006713 ligand binding site [chemical binding]; other site 743722006714 dimerization interface [polypeptide binding]; other site 743722006715 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 743722006716 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 743722006717 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 743722006718 Walker A/P-loop; other site 743722006719 ATP binding site [chemical binding]; other site 743722006720 Q-loop/lid; other site 743722006721 ABC transporter signature motif; other site 743722006722 Walker B; other site 743722006723 D-loop; other site 743722006724 H-loop/switch region; other site 743722006725 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 743722006726 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 743722006727 TM-ABC transporter signature motif; other site 743722006728 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 743722006729 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 743722006730 N- and C-terminal domain interface [polypeptide binding]; other site 743722006731 active site 743722006732 MgATP binding site [chemical binding]; other site 743722006733 catalytic site [active] 743722006734 metal binding site [ion binding]; metal-binding site 743722006735 carbohydrate binding site [chemical binding]; other site 743722006736 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 743722006737 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722006738 Helix-turn-helix domains; Region: HTH; cl00088 743722006739 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 743722006740 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 743722006741 putative substrate translocation pore; other site 743722006742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722006743 Helix-turn-helix domains; Region: HTH; cl00088 743722006744 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006745 SusD family; Region: SusD; pfam07980 743722006746 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006747 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006748 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 743722006749 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 743722006750 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 743722006751 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 743722006752 Short C-terminal domain; Region: SHOCT; cl01373 743722006753 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722006754 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 743722006755 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 743722006756 Membrane transport protein; Region: Mem_trans; cl09117 743722006757 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 743722006758 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 743722006759 galactonate dehydratase; Provisional; Region: PRK14017 743722006760 active site pocket [active] 743722006761 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 743722006762 dimer interface [polypeptide binding]; other site 743722006763 NADP binding site [chemical binding]; other site 743722006764 catalytic residues [active] 743722006765 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 743722006766 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006767 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006768 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 743722006769 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722006770 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006771 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722006772 Two component regulator propeller; Region: Reg_prop; pfam07494 743722006773 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 743722006774 dimer interface [polypeptide binding]; other site 743722006775 phosphorylation site [posttranslational modification] 743722006776 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722006777 ATP binding site [chemical binding]; other site 743722006778 Mg2+ binding site [ion binding]; other site 743722006779 G-X-G motif; other site 743722006780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722006781 Response regulator receiver domain; Region: Response_reg; pfam00072 743722006782 active site 743722006783 phosphorylation site [posttranslational modification] 743722006784 intermolecular recognition site; other site 743722006785 dimerization interface [polypeptide binding]; other site 743722006786 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722006787 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 743722006788 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 743722006789 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 743722006790 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 743722006791 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 743722006792 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 743722006793 inhibitor binding site; inhibition site 743722006794 active site 743722006795 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 743722006796 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 743722006797 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 743722006798 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006799 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006800 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 743722006801 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006802 SusD family; Region: SusD; pfam07980 743722006803 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 743722006804 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 743722006805 active site 743722006806 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 743722006807 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 743722006808 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 743722006809 inhibitor binding site; inhibition site 743722006810 active site 743722006811 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 743722006812 Putative esterase; Region: Esterase; pfam00756 743722006813 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722006814 Two component regulator propeller; Region: Reg_prop; pfam07494 743722006815 Two component regulator propeller; Region: Reg_prop; pfam07494 743722006816 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722006817 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 743722006818 dimer interface [polypeptide binding]; other site 743722006819 phosphorylation site [posttranslational modification] 743722006820 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722006821 ATP binding site [chemical binding]; other site 743722006822 Mg2+ binding site [ion binding]; other site 743722006823 G-X-G motif; other site 743722006824 Response regulator receiver domain; Region: Response_reg; pfam00072 743722006825 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722006826 active site 743722006827 phosphorylation site [posttranslational modification] 743722006828 intermolecular recognition site; other site 743722006829 dimerization interface [polypeptide binding]; other site 743722006830 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722006831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722006832 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 743722006833 Domain of unknown function (DUF303); Region: DUF303; pfam03629 743722006834 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722006835 Domain of unknown function (DUF303); Region: DUF303; pfam03629 743722006836 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 743722006837 substrate binding site [chemical binding]; other site 743722006838 active site 743722006839 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722006840 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722006841 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722006842 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006843 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 743722006844 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 743722006845 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 743722006846 S-adenosylmethionine binding site [chemical binding]; other site 743722006847 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 743722006848 trimer interface [polypeptide binding]; other site 743722006849 putative Zn binding site [ion binding]; other site 743722006850 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 743722006851 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722006852 Outer membrane efflux protein; Region: OEP; pfam02321 743722006853 Outer membrane efflux protein; Region: OEP; pfam02321 743722006854 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 743722006855 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 743722006856 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 743722006857 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722006858 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 743722006859 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 743722006860 catalytic residues [active] 743722006861 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 743722006862 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 743722006863 apical/protease domain interface [polypeptide binding]; other site 743722006864 substrate binding [chemical binding]; other site 743722006865 dimer interface [polypeptide binding]; other site 743722006866 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 743722006867 dimer interface [polypeptide binding]; other site 743722006868 active site 743722006869 metal binding site [ion binding]; metal-binding site 743722006870 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 743722006871 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722006872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722006873 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 743722006874 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 743722006875 putative substrate translocation pore; other site 743722006876 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722006877 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006878 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722006879 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 743722006880 N-terminal plug; other site 743722006881 ligand-binding site [chemical binding]; other site 743722006882 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006883 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 743722006884 Cupin domain; Region: Cupin_2; cl09118 743722006885 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722006886 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722006887 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 743722006888 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 743722006889 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722006890 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722006891 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 743722006892 N-terminal plug; other site 743722006893 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 743722006894 ligand-binding site [chemical binding]; other site 743722006895 ligand-binding site [chemical binding]; other site 743722006896 nucleoside transporter; Region: 2A0110; TIGR00889 743722006897 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 743722006898 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 743722006899 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 743722006900 GTP binding site; other site 743722006901 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 743722006902 active site 743722006903 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 743722006904 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 743722006905 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 743722006906 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 743722006907 motif II; other site 743722006908 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 743722006909 gating phenylalanine in ion channel; other site 743722006910 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 743722006911 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 743722006912 [4Fe-4S] binding site [ion binding]; other site 743722006913 molybdopterin cofactor binding site; other site 743722006914 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 743722006915 molybdopterin cofactor binding site; other site 743722006916 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 743722006917 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; cd03467 743722006918 iron-sulfur cluster [ion binding]; other site 743722006919 [2Fe-2S] cluster binding site [ion binding]; other site 743722006920 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722006921 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 743722006922 Glyco_18 domain; Region: Glyco_18; smart00636 743722006923 active site 743722006924 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 743722006925 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 743722006926 Sulfate transporter family; Region: Sulfate_transp; cl15842 743722006927 Sulfate transporter family; Region: Sulfate_transp; cl15842 743722006928 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 743722006929 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 743722006930 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 743722006931 putative NAD(P) binding site [chemical binding]; other site 743722006932 putative active site [active] 743722006933 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 743722006934 Ligand Binding Site [chemical binding]; other site 743722006935 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 743722006936 LamB/YcsF family; Region: LamB_YcsF; cl00664 743722006937 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 743722006938 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 743722006939 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 743722006940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722006941 active site 743722006942 hypothetical protein; Provisional; Region: PRK06753 743722006943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006945 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 743722006946 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 743722006947 S-adenosylmethionine binding site [chemical binding]; other site 743722006948 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 743722006949 active site 743722006950 8-oxo-dGMP binding site [chemical binding]; other site 743722006951 nudix motif; other site 743722006952 metal binding site [ion binding]; metal-binding site 743722006953 Predicted membrane protein [Function unknown]; Region: COG1470 743722006954 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 743722006955 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 743722006956 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 743722006957 Walker A/P-loop; other site 743722006958 ATP binding site [chemical binding]; other site 743722006959 Q-loop/lid; other site 743722006960 ABC transporter signature motif; other site 743722006961 Walker B; other site 743722006962 D-loop; other site 743722006963 H-loop/switch region; other site 743722006964 ABC-2 type transporter; Region: ABC2_membrane; cl11417 743722006965 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 743722006966 ResB-like family; Region: ResB; pfam05140 743722006967 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 743722006968 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 743722006969 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 743722006970 active site 743722006971 DNA binding site [nucleotide binding] 743722006972 DNA helicase, putative; Region: TIGR00376 743722006973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722006974 Family description; Region: UvrD_C_2; cl15862 743722006975 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 743722006976 active site 743722006977 nucleophile elbow; other site 743722006978 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 743722006979 Histidine kinase-like ATPases; This family includes several ATP-binding 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 743722006980 EcsC protein family; Region: EcsC; pfam12787 743722006981 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 743722006982 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 743722006983 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722006984 DinB superfamily; Region: DinB_2; pfam12867 743722006985 Predicted transcriptional regulator [Transcription]; Region: COG2378 743722006986 Helix-turn-helix domains; Region: HTH; cl00088 743722006987 WYL domain; Region: WYL; cl14852 743722006988 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 743722006989 S-adenosylmethionine binding site [chemical binding]; other site 743722006990 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722006991 Helix-turn-helix domains; Region: HTH; cl00088 743722006992 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 743722006993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006994 Methane oxygenase PmoA; Region: PmoA; pfam14100 743722006995 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722006996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722006997 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722006998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722006999 DNA-binding site [nucleotide binding]; DNA binding site 743722007000 FCD domain; Region: FCD; cl11656 743722007001 Transcriptional regulators [Transcription]; Region: MarR; COG1846 743722007002 Helix-turn-helix domains; Region: HTH; cl00088 743722007003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722007004 Coenzyme A binding pocket [chemical binding]; other site 743722007005 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007006 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007007 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007008 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722007009 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007010 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007011 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 743722007012 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007013 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 743722007014 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 743722007015 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 743722007016 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722007017 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 743722007018 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722007019 MG2 domain; Region: A2M_N; pfam01835 743722007020 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007021 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007022 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007023 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 743722007024 Helix-turn-helix domains; Region: HTH; cl00088 743722007025 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722007026 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 743722007027 active site 743722007028 catalytic tetrad [active] 743722007029 Arginase family; Region: Arginase; cl00306 743722007030 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 743722007031 active site 743722007032 Zn binding site [ion binding]; other site 743722007033 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722007034 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 743722007035 DNA binding residues [nucleotide binding] 743722007036 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 743722007037 Trp docking motif [polypeptide binding]; other site 743722007038 PQQ-like domain; Region: PQQ_2; pfam13360 743722007039 putative active site [active] 743722007040 Cytochrome c; Region: Cytochrom_C; cl11414 743722007041 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 743722007042 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722007043 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007044 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007045 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007046 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007047 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 743722007048 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722007049 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007050 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 743722007051 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 743722007052 active site pocket [active] 743722007053 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722007054 FecR protein; Region: FecR; pfam04773 743722007055 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 743722007056 D-galactonate transporter; Region: 2A0114; TIGR00893 743722007057 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 743722007058 putative substrate translocation pore; other site 743722007059 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007060 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 743722007061 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 743722007062 N-terminal plug; other site 743722007063 ligand-binding site [chemical binding]; other site 743722007064 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722007065 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 743722007066 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 743722007067 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 743722007068 active site 743722007069 catalytic tetrad [active] 743722007070 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722007071 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722007072 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 743722007073 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722007074 FecR protein; Region: FecR; pfam04773 743722007075 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722007076 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007077 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007078 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 743722007079 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007080 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722007081 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 743722007082 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 743722007083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722007084 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 743722007085 DNA binding site [nucleotide binding] 743722007086 active site 743722007087 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722007088 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 743722007089 putative substrate translocation pore; other site 743722007090 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 743722007091 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 743722007092 Helix-turn-helix domains; Region: HTH; cl00088 743722007093 Helix-turn-helix domains; Region: HTH; cl00088 743722007094 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 743722007095 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 743722007096 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 743722007097 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 743722007098 putative hydrophobic ligand binding site [chemical binding]; other site 743722007099 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 743722007100 putative hydrophobic ligand binding site [chemical binding]; other site 743722007101 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 743722007102 dimerization interface [polypeptide binding]; other site 743722007103 putative DNA binding site [nucleotide binding]; other site 743722007104 putative Zn2+ binding site [ion binding]; other site 743722007105 DinB superfamily; Region: DinB_2; pfam12867 743722007106 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722007107 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722007108 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722007109 active site 743722007110 metal binding site [ion binding]; metal-binding site 743722007111 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722007112 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 743722007113 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722007114 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 743722007115 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 743722007116 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722007117 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 743722007118 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 743722007119 Outer membrane efflux protein; Region: OEP; pfam02321 743722007120 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722007121 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722007122 Predicted acyl esterases [General function prediction only]; Region: COG2936 743722007123 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 743722007124 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 743722007125 HSP90 family protein; Provisional; Region: PRK14083 743722007126 Histidine kinase-like ATPases; This family includes several ATP-binding 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 743722007127 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 743722007128 Sel1 repeat; Region: Sel1; cl02723 743722007129 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 743722007130 Sel1 repeat; Region: Sel1; cl02723 743722007131 Sel1 repeat; Region: Sel1; cl02723 743722007132 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722007133 Clp protease; Region: CLP_protease; pfam00574 743722007134 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 743722007135 oligomer interface [polypeptide binding]; other site 743722007136 active site residues [active] 743722007137 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 743722007138 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 743722007139 S-adenosylmethionine binding site [chemical binding]; other site 743722007140 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 743722007141 Helix-turn-helix domains; Region: HTH; cl00088 743722007142 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 743722007143 dimerization interface [polypeptide binding]; other site 743722007144 substrate binding pocket [chemical binding]; other site 743722007145 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 743722007146 Cupin domain; Region: Cupin_2; cl09118 743722007147 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 743722007148 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722007149 Coenzyme A binding pocket [chemical binding]; other site 743722007150 GtrA-like protein; Region: GtrA; cl00971 743722007151 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 743722007152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722007153 Coenzyme A binding pocket [chemical binding]; other site 743722007154 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; cl00942 743722007155 aromatic arch; other site 743722007156 DCoH dimer interaction site [polypeptide binding]; other site 743722007157 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 743722007158 DCoH tetramer interaction site [polypeptide binding]; other site 743722007159 substrate binding site [chemical binding]; other site 743722007160 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 743722007161 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722007162 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722007163 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 743722007164 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 743722007165 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722007166 Helix-turn-helix domains; Region: HTH; cl00088 743722007167 WHG domain; Region: WHG; pfam13305 743722007168 NlpC/P60 family; Region: NLPC_P60; cl11438 743722007169 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 743722007170 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 743722007171 substrate binding site [chemical binding]; other site 743722007172 ATP binding site [chemical binding]; other site 743722007173 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722007174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722007175 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 743722007176 FecR protein; Region: FecR; pfam04773 743722007177 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722007178 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007179 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007180 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 743722007181 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007182 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 743722007183 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 743722007184 Mechanosensitive ion channel; Region: MS_channel; pfam00924 743722007185 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722007186 DNA binding site [nucleotide binding] 743722007187 domain linker motif; other site 743722007188 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 743722007189 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 743722007190 ligand binding site [chemical binding]; other site 743722007191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007192 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722007193 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 743722007194 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007195 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007196 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007197 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007198 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 743722007199 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007200 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722007201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007202 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 743722007203 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722007204 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 743722007205 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 743722007206 active site 743722007207 dimer interface [polypeptide binding]; other site 743722007208 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722007209 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722007210 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722007211 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722007212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007213 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722007214 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 743722007215 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 743722007216 Cytochrome c; Region: Cytochrom_C; cl11414 743722007217 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 743722007218 active site 743722007219 catalytic triad [active] 743722007220 oxyanion hole [active] 743722007221 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722007222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007223 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 743722007224 metal binding site [ion binding]; metal-binding site 743722007225 substrate binding pocket [chemical binding]; other site 743722007226 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 743722007227 catalytic residue [active] 743722007228 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722007229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007230 NAD(P) binding site [chemical binding]; other site 743722007231 active site 743722007232 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 743722007233 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 743722007234 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007235 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007236 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007237 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 743722007238 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 743722007239 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 743722007240 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 743722007241 putative dimer interface [polypeptide binding]; other site 743722007242 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 743722007243 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 743722007244 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722007245 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 743722007246 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007247 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007248 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007249 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007250 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007251 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722007252 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722007253 beta-D-glucuronidase; Provisional; Region: PRK10150 743722007254 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722007255 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722007256 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 743722007257 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 743722007258 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 743722007259 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 743722007260 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 743722007261 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722007262 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722007263 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722007264 Two component regulator propeller; Region: Reg_prop; pfam07494 743722007265 Two component regulator propeller; Region: Reg_prop; pfam07494 743722007266 Two component regulator propeller; Region: Reg_prop; pfam07494 743722007267 Two component regulator propeller; Region: Reg_prop; pfam07494 743722007268 Two component regulator propeller; Region: Reg_prop; pfam07494 743722007269 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722007270 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 743722007271 dimer interface [polypeptide binding]; other site 743722007272 phosphorylation site [posttranslational modification] 743722007273 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722007274 ATP binding site [chemical binding]; other site 743722007275 Mg2+ binding site [ion binding]; other site 743722007276 G-X-G motif; other site 743722007277 Response regulator receiver domain; Region: Response_reg; pfam00072 743722007278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722007279 active site 743722007280 phosphorylation site [posttranslational modification] 743722007281 intermolecular recognition site; other site 743722007282 dimerization interface [polypeptide binding]; other site 743722007283 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722007284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722007285 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722007286 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 743722007287 active site 743722007288 catalytic tetrad [active] 743722007289 Cupin domain; Region: Cupin_2; cl09118 743722007290 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722007291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722007292 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 743722007293 active site 743722007294 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 743722007295 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 743722007296 dimer interface [polypeptide binding]; other site 743722007297 active site 743722007298 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 743722007299 substrate binding site [chemical binding]; other site 743722007300 catalytic residue [active] 743722007301 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 743722007302 homotrimer interaction site [polypeptide binding]; other site 743722007303 putative active site [active] 743722007304 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 743722007305 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722007306 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722007307 DNA binding site [nucleotide binding] 743722007308 domain linker motif; other site 743722007309 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722007310 ligand binding site [chemical binding]; other site 743722007311 dimerization interface [polypeptide binding]; other site 743722007312 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 743722007313 active site 743722007314 catalytic triad [active] 743722007315 Pectinesterase; Region: Pectinesterase; cl01911 743722007316 Pectic acid lyase; Region: Pec_lyase; pfam09492 743722007317 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 743722007318 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 743722007319 active site 743722007320 Pectinesterase; Region: Pectinesterase; cl01911 743722007321 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007322 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007323 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 743722007324 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 743722007325 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007326 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007327 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007328 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007329 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 743722007330 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007331 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007332 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 743722007333 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 743722007334 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 743722007335 altronate oxidoreductase; Provisional; Region: PRK03643 743722007336 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 743722007337 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 743722007338 SAF domain; Region: SAF; cl00555 743722007339 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 743722007340 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 743722007341 Glucuronate isomerase; Region: UxaC; cl00829 743722007342 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 743722007343 putative substrate translocation pore; other site 743722007344 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722007345 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 743722007346 putative substrate translocation pore; other site 743722007347 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722007348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 743722007349 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722007350 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 743722007351 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 743722007352 dimer interface [polypeptide binding]; other site 743722007353 active site 743722007354 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 743722007355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007356 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 743722007357 putative active site [active] 743722007358 putative metal binding site [ion binding]; other site 743722007359 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 743722007360 active site 743722007361 catalytic triad [active] 743722007362 oxyanion hole [active] 743722007363 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 743722007364 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722007365 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 743722007366 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 743722007367 active site 743722007368 catalytic site [active] 743722007369 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007370 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007371 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007372 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 743722007373 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007374 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722007375 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 743722007376 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 743722007377 amphipathic channel; other site 743722007378 Asn-Pro-Ala signature motifs; other site 743722007379 glycerol kinase; Provisional; Region: glpK; PRK00047 743722007380 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 743722007381 N- and C-terminal domain interface [polypeptide binding]; other site 743722007382 active site 743722007383 MgATP binding site [chemical binding]; other site 743722007384 catalytic site [active] 743722007385 metal binding site [ion binding]; metal-binding site 743722007386 glycerol binding site [chemical binding]; other site 743722007387 homotetramer interface [polypeptide binding]; other site 743722007388 homodimer interface [polypeptide binding]; other site 743722007389 FBP binding site [chemical binding]; other site 743722007390 protein IIAGlc interface [polypeptide binding]; other site 743722007391 glycerol-3-phosphate dehydrogenase; Region: PLN02464 743722007392 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 743722007393 Helix-turn-helix domains; Region: HTH; cl00088 743722007394 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 743722007395 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 743722007396 catalytic residues [active] 743722007397 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722007398 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 743722007399 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 743722007400 Class I ribonucleotide reductase; Region: RNR_I; cd01679 743722007401 active site 743722007402 dimer interface [polypeptide binding]; other site 743722007403 catalytic residues [active] 743722007404 effector binding site; other site 743722007405 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 743722007406 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 743722007407 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 743722007408 dimer interface [polypeptide binding]; other site 743722007409 putative radical transfer pathway; other site 743722007410 diiron center [ion binding]; other site 743722007411 tyrosyl radical; other site 743722007412 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 743722007413 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 743722007414 GH3 auxin-responsive promoter; Region: GH3; cl04006 743722007415 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 743722007416 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 743722007417 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 743722007418 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 743722007419 RIP metalloprotease RseP; Region: TIGR00054 743722007420 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 743722007421 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 743722007422 protein binding site [polypeptide binding]; other site 743722007423 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 743722007424 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 743722007425 putative substrate binding region [chemical binding]; other site 743722007426 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722007427 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 743722007428 CheB methylesterase; Region: CheB_methylest; pfam01339 743722007429 trigger factor; Region: tig; TIGR00115 743722007430 Clp protease; Region: CLP_protease; pfam00574 743722007431 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 743722007432 oligomer interface [polypeptide binding]; other site 743722007433 active site residues [active] 743722007434 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 743722007435 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 743722007436 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 743722007437 Walker A motif; other site 743722007438 ATP binding site [chemical binding]; other site 743722007439 Walker B motif; other site 743722007440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 743722007441 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 743722007442 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 743722007443 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 743722007444 dimer interface [polypeptide binding]; other site 743722007445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722007446 catalytic residue [active] 743722007447 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 743722007448 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 743722007449 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 743722007450 hinge; other site 743722007451 active site 743722007452 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 743722007453 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 743722007454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722007455 Family description; Region: UvrD_C_2; cl15862 743722007456 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722007457 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 743722007458 nudix motif; other site 743722007459 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 743722007460 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 743722007461 Competence protein; Region: Competence; cl00471 743722007462 helicase 45; Provisional; Region: PTZ00424 743722007463 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 743722007464 ATP binding site [chemical binding]; other site 743722007465 putative Mg++ binding site [ion binding]; other site 743722007466 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 743722007467 nucleotide binding region [chemical binding]; other site 743722007468 ATP-binding site [chemical binding]; other site 743722007469 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 743722007470 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722007471 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 743722007472 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722007473 FecR protein; Region: FecR; pfam04773 743722007474 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007475 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007476 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 743722007477 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 743722007478 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722007479 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007480 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 743722007481 Cysteine-rich domain; Region: CCG; pfam02754 743722007482 Cysteine-rich domain; Region: CCG; pfam02754 743722007483 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 743722007484 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722007485 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 743722007486 DNA binding residues [nucleotide binding] 743722007487 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722007488 FecR protein; Region: FecR; pfam04773 743722007489 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722007490 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007491 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007492 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 743722007493 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007494 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007495 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007496 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 743722007497 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 743722007498 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007499 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007500 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 743722007501 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 743722007502 DNA interaction; other site 743722007503 Metal-binding active site; metal-binding site 743722007504 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722007505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007506 HEAT repeats; Region: HEAT_2; pfam13646 743722007507 HEAT repeats; Region: HEAT_2; pfam13646 743722007508 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722007509 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722007510 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722007511 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722007512 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 743722007513 DNA binding residues [nucleotide binding] 743722007514 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722007515 FecR protein; Region: FecR; pfam04773 743722007516 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722007517 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722007518 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007519 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722007520 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 743722007521 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722007522 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722007523 dihydroorotase; Provisional; Region: PRK09237 743722007524 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 743722007525 active site 743722007526 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 743722007527 homotrimer interaction site [polypeptide binding]; other site 743722007528 putative active site [active] 743722007529 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 743722007530 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 743722007531 Membrane transport protein; Region: Mem_trans; cl09117 743722007532 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 743722007533 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 743722007534 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 743722007535 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 743722007536 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 743722007537 active site 743722007538 dimer interface [polypeptide binding]; other site 743722007539 motif 1; other site 743722007540 motif 2; other site 743722007541 motif 3; other site 743722007542 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 743722007543 anticodon binding site; other site 743722007544 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 743722007545 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 743722007546 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 743722007547 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 743722007548 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 743722007549 23S rRNA binding site [nucleotide binding]; other site 743722007550 L21 binding site [polypeptide binding]; other site 743722007551 L13 binding site [polypeptide binding]; other site 743722007552 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 743722007553 active site 743722007554 catalytic residues [active] 743722007555 metal binding site [ion binding]; metal-binding site 743722007556 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 743722007557 catalytic loop [active] 743722007558 iron binding site [ion binding]; other site 743722007559 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 743722007560 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722007561 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722007562 Helix-turn-helix domains; Region: HTH; cl00088 743722007563 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 743722007564 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 743722007565 Protein export membrane protein; Region: SecD_SecF; cl14618 743722007566 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 743722007567 Protein export membrane protein; Region: SecD_SecF; cl14618 743722007568 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 743722007569 folate binding site [chemical binding]; other site 743722007570 NADP+ binding site [chemical binding]; other site 743722007571 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 743722007572 dimerization interface [polypeptide binding]; other site 743722007573 active site 743722007574 Immunoglobulin domain; Region: Ig; cl11960 743722007575 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722007576 FlgD Ig-like domain; Region: FlgD_ig; cl15790 743722007577 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 743722007578 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 743722007579 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 743722007580 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 743722007581 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 743722007582 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 743722007583 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 743722007584 NAD(P) binding site [chemical binding]; other site 743722007585 Found in ATP-dependent protease La (LON); Region: LON; smart00464 743722007586 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 743722007587 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 743722007588 Walker A motif; other site 743722007589 ATP binding site [chemical binding]; other site 743722007590 Walker B motif; other site 743722007591 arginine finger; other site 743722007592 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 743722007593 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 743722007594 binding surface 743722007595 TPR motif; other site 743722007596 Sulfatase; Region: Sulfatase; cl10460 743722007597 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 743722007598 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 743722007599 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 743722007600 dimerization interface [polypeptide binding]; other site 743722007601 active site 743722007602 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 743722007603 Peptidase family M48; Region: Peptidase_M48; cl12018 743722007604 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 743722007605 chorismate binding enzyme; Region: Chorismate_bind; cl10555 743722007606 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 743722007607 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 743722007608 GDP-binding site [chemical binding]; other site 743722007609 ACT binding site; other site 743722007610 IMP binding site; other site 743722007611 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 743722007612 metal binding site 2 [ion binding]; metal-binding site 743722007613 putative DNA binding helix; other site 743722007614 metal binding site 1 [ion binding]; metal-binding site 743722007615 dimer interface [polypeptide binding]; other site 743722007616 structural Zn2+ binding site [ion binding]; other site 743722007617 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 743722007618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722007619 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 743722007620 synthetase active site [active] 743722007621 NTP binding site [chemical binding]; other site 743722007622 metal binding site [ion binding]; metal-binding site 743722007623 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 743722007624 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 743722007625 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 743722007626 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 743722007627 catalytic residues [active] 743722007628 dimer interface [polypeptide binding]; other site 743722007629 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 743722007630 acyl-coenzyme A oxidase; Region: PLN02526 743722007631 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 743722007632 active site 743722007633 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 743722007634 NAD(P) binding site [chemical binding]; other site 743722007635 4Fe-4S binding domain; Region: Fer4; cl02805 743722007636 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 743722007637 Ligand Binding Site [chemical binding]; other site 743722007638 NlpC/P60 family; Region: NLPC_P60; cl11438 743722007639 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 743722007640 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 743722007641 dimer interface [polypeptide binding]; other site 743722007642 active site 743722007643 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 743722007644 catalytic residues [active] 743722007645 substrate binding site [chemical binding]; other site 743722007646 Amidinotransferase; Region: Amidinotransf; cl12043 743722007647 Amidinotransferase; Region: Amidinotransf; cl12043 743722007648 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 743722007649 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 743722007650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722007651 active site 743722007652 HIGH motif; other site 743722007653 nucleotide binding site [chemical binding]; other site 743722007654 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 743722007655 KMSK motif region; other site 743722007656 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 743722007657 tRNA binding surface [nucleotide binding]; other site 743722007658 anticodon binding site; other site 743722007659 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 743722007660 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722007661 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 743722007662 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 743722007663 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 743722007664 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 743722007665 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 743722007666 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 743722007667 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 743722007668 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 743722007669 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722007670 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 743722007671 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 743722007672 active site 743722007673 substrate-binding site [chemical binding]; other site 743722007674 metal-binding site [ion binding] 743722007675 ATP binding site [chemical binding]; other site 743722007676 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722007677 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 743722007678 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 743722007679 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 743722007680 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 743722007681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722007682 catalytic residue [active] 743722007683 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722007684 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 743722007685 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 743722007686 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 743722007687 Cl- selectivity filter; other site 743722007688 Cl- binding residues [ion binding]; other site 743722007689 pore gating glutamate residue; other site 743722007690 dimer interface [polypeptide binding]; other site 743722007691 FOG: CBS domain [General function prediction only]; Region: COG0517 743722007692 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 743722007693 Late embryogenesis abundant protein; Region: LEA_2; cl12118 743722007694 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722007695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722007696 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722007697 Helix-turn-helix domains; Region: HTH; cl00088 743722007698 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 743722007699 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 743722007700 substrate-cofactor binding pocket; other site 743722007701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722007702 catalytic residue [active] 743722007703 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007704 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 743722007705 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 743722007706 GtrA-like protein; Region: GtrA; cl00971 743722007707 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722007708 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722007709 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 743722007710 GAF domain; Region: GAF; cl15785 743722007711 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 743722007712 Putative esterase; Region: Esterase; pfam00756 743722007713 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 743722007714 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 743722007715 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 743722007716 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 743722007717 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 743722007718 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 743722007719 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 743722007720 putative trimer interface [polypeptide binding]; other site 743722007721 putative CoA binding site [chemical binding]; other site 743722007722 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 743722007723 substrate binding site [chemical binding]; other site 743722007724 dimer interface [polypeptide binding]; other site 743722007725 catalytic triad [active] 743722007726 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 743722007727 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; cl16911 743722007728 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 743722007729 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 743722007730 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722007731 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 743722007732 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 743722007733 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 743722007734 non-specific DNA binding site [nucleotide binding]; other site 743722007735 salt bridge; other site 743722007736 sequence-specific DNA binding site [nucleotide binding]; other site 743722007737 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 743722007738 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 743722007739 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 743722007740 FeS/SAM binding site; other site 743722007741 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 743722007742 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 743722007743 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 743722007744 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 743722007745 FeS/SAM binding site; other site 743722007746 NlpC/P60 family; Region: NLPC_P60; cl11438 743722007747 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 743722007748 active site 743722007749 catalytic site [active] 743722007750 substrate binding site [chemical binding]; other site 743722007751 exodeoxyribonuclease X; Provisional; Region: PRK07983 743722007752 replicative DNA helicase; Region: DnaB; TIGR00665 743722007753 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 743722007754 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 743722007755 Walker A motif; other site 743722007756 ATP binding site [chemical binding]; other site 743722007757 Walker B motif; other site 743722007758 DNA binding loops [nucleotide binding] 743722007759 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 743722007760 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 743722007761 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 743722007762 nucleoside transporter; Region: 2A0110; TIGR00889 743722007763 Bifunctional nuclease; Region: DNase-RNase; cl00553 743722007764 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 743722007765 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 743722007766 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 743722007767 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 743722007768 Ligand binding site [chemical binding]; other site 743722007769 Electron transfer flavoprotein domain; Region: ETF; pfam01012 743722007770 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 743722007771 TPR motif; other site 743722007772 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722007773 binding surface 743722007774 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 743722007775 MutS domain I; Region: MutS_I; pfam01624 743722007776 MutS domain II; Region: MutS_II; pfam05188 743722007777 MutS family domain IV; Region: MutS_IV; pfam05190 743722007778 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 743722007779 Walker A/P-loop; other site 743722007780 ATP binding site [chemical binding]; other site 743722007781 Q-loop/lid; other site 743722007782 ABC transporter signature motif; other site 743722007783 Walker B; other site 743722007784 D-loop; other site 743722007785 H-loop/switch region; other site 743722007786 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; cl16911 743722007787 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 743722007788 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 743722007789 active site 743722007790 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 743722007791 active site 743722007792 catalytic triad [active] 743722007793 oxyanion hole [active] 743722007794 Permease; Region: Permease; cl00510 743722007795 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 743722007796 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 743722007797 Walker A/P-loop; other site 743722007798 ATP binding site [chemical binding]; other site 743722007799 Q-loop/lid; other site 743722007800 ABC transporter signature motif; other site 743722007801 Walker B; other site 743722007802 D-loop; other site 743722007803 H-loop/switch region; other site 743722007804 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 743722007805 mce related protein; Region: MCE; pfam02470 743722007806 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 743722007807 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 743722007808 active site 743722007809 YceG-like family; Region: YceG; pfam02618 743722007810 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 743722007811 dimerization interface [polypeptide binding]; other site 743722007812 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 743722007813 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 743722007814 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 743722007815 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 743722007816 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 743722007817 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722007818 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 743722007819 active site 743722007820 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 743722007821 16S/18S rRNA binding site [nucleotide binding]; other site 743722007822 S13e-L30e interaction site [polypeptide binding]; other site 743722007823 25S rRNA binding site [nucleotide binding]; other site 743722007824 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 743722007825 active site 743722007826 catalytic triad [active] 743722007827 oxyanion hole [active] 743722007828 Helix-turn-helix domains; Region: HTH; cl00088 743722007829 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 743722007830 putative substrate translocation pore; other site 743722007831 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 743722007832 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 743722007833 catalytic motif [active] 743722007834 Catalytic residue [active] 743722007835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722007836 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 743722007837 Coenzyme A binding pocket [chemical binding]; other site 743722007838 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 743722007839 catalytic motif [active] 743722007840 Catalytic residue [active] 743722007841 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722007842 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 743722007843 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 743722007844 RNase E interface [polypeptide binding]; other site 743722007845 trimer interface [polypeptide binding]; other site 743722007846 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 743722007847 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 743722007848 RNase E interface [polypeptide binding]; other site 743722007849 trimer interface [polypeptide binding]; other site 743722007850 active site 743722007851 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 743722007852 RNA binding site [nucleotide binding]; other site 743722007853 domain interface; other site 743722007854 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 743722007855 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 743722007856 substrate binding site [chemical binding]; other site 743722007857 hexamer interface [polypeptide binding]; other site 743722007858 metal binding site [ion binding]; metal-binding site 743722007859 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 743722007860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722007861 catalytic residue [active] 743722007862 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 743722007863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007864 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 743722007865 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 743722007866 substrate binding pocket [chemical binding]; other site 743722007867 chain length determination region; other site 743722007868 substrate-Mg2+ binding site; other site 743722007869 catalytic residues [active] 743722007870 aspartate-rich region 1; other site 743722007871 active site lid residues [active] 743722007872 aspartate-rich region 2; other site 743722007873 ribonuclease R; Region: RNase_R; TIGR02063 743722007874 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 743722007875 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 743722007876 RNB domain; Region: RNB; pfam00773 743722007877 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 743722007878 RNA binding site [nucleotide binding]; other site 743722007879 Helix-turn-helix domains; Region: HTH; cl00088 743722007880 metal binding site 2 [ion binding]; metal-binding site 743722007881 putative DNA binding helix; other site 743722007882 metal binding site 1 [ion binding]; metal-binding site 743722007883 dimer interface [polypeptide binding]; other site 743722007884 structural Zn2+ binding site [ion binding]; other site 743722007885 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 743722007886 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 743722007887 recombination protein RecR; Reviewed; Region: recR; PRK00076 743722007888 RecR protein; Region: RecR; pfam02132 743722007889 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 743722007890 putative active site [active] 743722007891 putative metal-binding site [ion binding]; other site 743722007892 tetramer interface [polypeptide binding]; other site 743722007893 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 743722007894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007895 NAD(P) binding site [chemical binding]; other site 743722007896 active site 743722007897 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 743722007898 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 743722007899 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 743722007900 active site 743722007901 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 743722007902 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 743722007903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722007904 catalytic residue [active] 743722007905 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 743722007906 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 743722007907 substrate binding site [chemical binding]; other site 743722007908 active site 743722007909 catalytic residues [active] 743722007910 heterodimer interface [polypeptide binding]; other site 743722007911 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 743722007912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722007913 putative substrate translocation pore; other site 743722007914 hypothetical protein; Provisional; Region: PRK08201 743722007915 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 743722007916 metal binding site [ion binding]; metal-binding site 743722007917 putative dimer interface [polypeptide binding]; other site 743722007918 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 743722007919 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 743722007920 motif 1; other site 743722007921 active site 743722007922 motif 2; other site 743722007923 motif 3; other site 743722007924 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 743722007925 DHHA1 domain; Region: DHHA1; pfam02272 743722007926 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 743722007927 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 743722007928 catalytic residues [active] 743722007929 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722007930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722007931 active site 743722007932 phosphorylation site [posttranslational modification] 743722007933 intermolecular recognition site; other site 743722007934 dimerization interface [polypeptide binding]; other site 743722007935 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 743722007936 DNA binding site [nucleotide binding] 743722007937 GAF domain; Region: GAF_2; pfam13185 743722007938 GAF domain; Region: GAF; cl15785 743722007939 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 743722007940 dimer interface [polypeptide binding]; other site 743722007941 phosphorylation site [posttranslational modification] 743722007942 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722007943 ATP binding site [chemical binding]; other site 743722007944 Mg2+ binding site [ion binding]; other site 743722007945 G-X-G motif; other site 743722007946 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 743722007947 active site 743722007948 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 743722007949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722007950 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 743722007951 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 743722007952 non-specific DNA binding site [nucleotide binding]; other site 743722007953 salt bridge; other site 743722007954 sequence-specific DNA binding site [nucleotide binding]; other site 743722007955 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; cd06462 743722007956 Catalytic site [active] 743722007957 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 743722007958 GIY-YIG motif/motif A; other site 743722007959 putative active site [active] 743722007960 putative metal binding site [ion binding]; other site 743722007961 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 743722007962 translocation protein TolB; Provisional; Region: tolB; PRK02889 743722007963 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 743722007964 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722007965 Surface antigen; Region: Bac_surface_Ag; cl03097 743722007966 Transglycosylase; Region: Transgly; cl07896 743722007967 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722007968 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 743722007969 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 743722007970 motif II; other site 743722007971 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 743722007972 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 743722007973 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 743722007974 Walker A/P-loop; other site 743722007975 ATP binding site [chemical binding]; other site 743722007976 Q-loop/lid; other site 743722007977 ABC transporter signature motif; other site 743722007978 Walker B; other site 743722007979 D-loop; other site 743722007980 H-loop/switch region; other site 743722007981 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 743722007982 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722007983 chaperone protein DnaJ; Provisional; Region: PRK14289 743722007984 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 743722007985 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 743722007986 substrate binding site [polypeptide binding]; other site 743722007987 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 743722007988 Zn binding sites [ion binding]; other site 743722007989 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 743722007990 dimer interface [polypeptide binding]; other site 743722007991 heat shock protein GrpE; Provisional; Region: PRK14140 743722007992 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 743722007993 dimer interface [polypeptide binding]; other site 743722007994 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 743722007995 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 743722007996 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722007997 Walker A/P-loop; other site 743722007998 ATP binding site [chemical binding]; other site 743722007999 Q-loop/lid; other site 743722008000 ABC transporter signature motif; other site 743722008001 Walker B; other site 743722008002 D-loop; other site 743722008003 H-loop/switch region; other site 743722008004 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 743722008005 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 743722008006 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_22; cd08359 743722008007 putative dimer interface [polypeptide binding]; other site 743722008008 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722008009 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722008010 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722008011 DoxX; Region: DoxX; cl00976 743722008012 GTP-binding protein YchF; Reviewed; Region: PRK09601 743722008013 YchF GTPase; Region: YchF; cd01900 743722008014 G1 box; other site 743722008015 GTP/Mg2+ binding site [chemical binding]; other site 743722008016 Switch I region; other site 743722008017 G2 box; other site 743722008018 Switch II region; other site 743722008019 G3 box; other site 743722008020 G4 box; other site 743722008021 G5 box; other site 743722008022 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 743722008023 Helix-turn-helix domains; Region: HTH; cl00088 743722008024 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722008025 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722008026 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722008027 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008028 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722008029 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 743722008030 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722008031 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722008032 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 743722008033 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 743722008034 Fibronectin type III-like domain; Region: Fn3-like; cl15273 743722008035 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 743722008036 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 743722008037 RNA binding site [nucleotide binding]; other site 743722008038 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 743722008039 RNA binding site [nucleotide binding]; other site 743722008040 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 743722008041 RNA binding site [nucleotide binding]; other site 743722008042 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 743722008043 RNA binding site [nucleotide binding]; other site 743722008044 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 743722008045 RNA binding site [nucleotide binding]; other site 743722008046 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 743722008047 cytidylate kinase; Provisional; Region: cmk; PRK00023 743722008048 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 743722008049 CMP-binding site; other site 743722008050 The sites determining sugar specificity; other site 743722008051 RF-1 domain; Region: RF-1; cl02875 743722008052 CcmE; Region: CcmE; cl00994 743722008053 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 743722008054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008055 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 743722008056 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722008057 Maf-like protein; Region: Maf; pfam02545 743722008058 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 743722008059 active site 743722008060 dimer interface [polypeptide binding]; other site 743722008061 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 743722008062 active site 743722008063 metal binding site [ion binding]; metal-binding site 743722008064 homotetramer interface [polypeptide binding]; other site 743722008065 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 743722008066 AMP binding site [chemical binding]; other site 743722008067 metal binding site [ion binding]; metal-binding site 743722008068 active site 743722008069 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722008070 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 743722008071 DNA binding residues [nucleotide binding] 743722008072 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 743722008073 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 743722008074 Ligand Binding Site [chemical binding]; other site 743722008075 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 743722008076 isocitrate dehydrogenase; Validated; Region: PRK07362 743722008077 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 743722008078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008079 active site 743722008080 phosphorylation site [posttranslational modification] 743722008081 intermolecular recognition site; other site 743722008082 dimerization interface [polypeptide binding]; other site 743722008083 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 743722008084 Walker A motif; other site 743722008085 ATP binding site [chemical binding]; other site 743722008086 Walker B motif; other site 743722008087 arginine finger; other site 743722008088 Helix-turn-helix domains; Region: HTH; cl00088 743722008089 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 743722008090 dimer interface [polypeptide binding]; other site 743722008091 phosphorylation site [posttranslational modification] 743722008092 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722008093 ATP binding site [chemical binding]; other site 743722008094 Mg2+ binding site [ion binding]; other site 743722008095 G-X-G motif; other site 743722008096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008097 Response regulator receiver domain; Region: Response_reg; pfam00072 743722008098 active site 743722008099 phosphorylation site [posttranslational modification] 743722008100 intermolecular recognition site; other site 743722008101 dimerization interface [polypeptide binding]; other site 743722008102 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 743722008103 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 743722008104 Clp amino terminal domain; Region: Clp_N; pfam02861 743722008105 Clp amino terminal domain; Region: Clp_N; pfam02861 743722008106 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 743722008107 Walker A motif; other site 743722008108 ATP binding site [chemical binding]; other site 743722008109 Walker B motif; other site 743722008110 arginine finger; other site 743722008111 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 743722008112 Walker A motif; other site 743722008113 ATP binding site [chemical binding]; other site 743722008114 Walker B motif; other site 743722008115 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 743722008116 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 743722008117 hydrophobic ligand binding site; other site 743722008118 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 743722008119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722008120 active site 743722008121 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 743722008122 active site 743722008123 Ap6A binding site [chemical binding]; other site 743722008124 nudix motif; other site 743722008125 metal binding site [ion binding]; metal-binding site 743722008126 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 743722008127 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 743722008128 active site 743722008129 (T/H)XGH motif; other site 743722008130 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 743722008131 S-adenosylmethionine binding site [chemical binding]; other site 743722008132 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 743722008133 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722008134 Family description; Region: UvrD_C_2; cl15862 743722008135 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 743722008136 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 743722008137 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 743722008138 active site 743722008139 FMN binding site [chemical binding]; other site 743722008140 substrate binding site [chemical binding]; other site 743722008141 3Fe-4S cluster binding site [ion binding]; other site 743722008142 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 743722008143 trimer interface [polypeptide binding]; other site 743722008144 active site 743722008145 dimer interface [polypeptide binding]; other site 743722008146 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 743722008147 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 743722008148 Probable Catalytic site; other site 743722008149 metal-binding site 743722008150 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 743722008151 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 743722008152 putative acyl-acceptor binding pocket; other site 743722008153 WbqC-like protein family; Region: WbqC; pfam08889 743722008154 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 743722008155 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 743722008156 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 743722008157 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 743722008158 Domain of unknown function (DUF305); Region: DUF305; cl15795 743722008159 putative oxidoreductase; Provisional; Region: PRK11579 743722008160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008161 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722008162 polyphosphate kinase; Provisional; Region: PRK05443 743722008163 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 743722008164 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 743722008165 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 743722008166 domain interface [polypeptide binding]; other site 743722008167 active site 743722008168 catalytic site [active] 743722008169 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 743722008170 domain interface [polypeptide binding]; other site 743722008171 active site 743722008172 catalytic site [active] 743722008173 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 743722008174 aspartate kinase III; Validated; Region: PRK09084 743722008175 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 743722008176 putative catalytic residues [active] 743722008177 nucleotide binding site [chemical binding]; other site 743722008178 aspartate binding site [chemical binding]; other site 743722008179 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 743722008180 dimer interface [polypeptide binding]; other site 743722008181 allosteric regulatory binding pocket; other site 743722008182 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 743722008183 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 743722008184 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 743722008185 active site 743722008186 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 743722008187 substrate binding site [chemical binding]; other site 743722008188 catalytic residues [active] 743722008189 dimer interface [polypeptide binding]; other site 743722008190 DNA topoisomerase I; Validated; Region: PRK06599 743722008191 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 743722008192 active site 743722008193 interdomain interaction site; other site 743722008194 putative metal-binding site [ion binding]; other site 743722008195 nucleotide binding site [chemical binding]; other site 743722008196 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 743722008197 domain I; other site 743722008198 DNA binding groove [nucleotide binding] 743722008199 phosphate binding site [ion binding]; other site 743722008200 domain II; other site 743722008201 domain III; other site 743722008202 nucleotide binding site [chemical binding]; other site 743722008203 catalytic site [active] 743722008204 domain IV; other site 743722008205 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 743722008206 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 743722008207 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 743722008208 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 743722008209 Ligand Binding Site [chemical binding]; other site 743722008210 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 743722008211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008212 NAD(P) binding site [chemical binding]; other site 743722008213 active site 743722008214 AIR carboxylase; Region: AIRC; cl00310 743722008215 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 743722008216 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722008217 NADH dehydrogenase subunit B; Provisional; Region: PRK14818 743722008218 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 743722008219 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 743722008220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008221 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 743722008222 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 743722008223 active site 743722008224 intersubunit interactions; other site 743722008225 catalytic residue [active] 743722008226 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 743722008227 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 743722008228 active site 743722008229 dimer interface [polypeptide binding]; other site 743722008230 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 743722008231 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 743722008232 active site 743722008233 FMN binding site [chemical binding]; other site 743722008234 substrate binding site [chemical binding]; other site 743722008235 3Fe-4S cluster binding site [ion binding]; other site 743722008236 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 743722008237 domain interface; other site 743722008238 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 743722008239 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 743722008240 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 743722008241 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 743722008242 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 743722008243 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 743722008244 Surface antigen; Region: Bac_surface_Ag; cl03097 743722008245 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 743722008246 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 743722008247 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 743722008248 HEPN domain; Region: HEPN; cl00824 743722008249 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 743722008250 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 743722008251 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 743722008252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008253 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 743722008254 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 743722008255 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 743722008256 Active Sites [active] 743722008257 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 743722008258 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 743722008259 Active Sites [active] 743722008260 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 743722008261 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 743722008262 CysD dimerization site [polypeptide binding]; other site 743722008263 G1 box; other site 743722008264 putative GEF interaction site [polypeptide binding]; other site 743722008265 GTP/Mg2+ binding site [chemical binding]; other site 743722008266 Switch I region; other site 743722008267 G2 box; other site 743722008268 G3 box; other site 743722008269 Switch II region; other site 743722008270 G4 box; other site 743722008271 G5 box; other site 743722008272 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 743722008273 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 743722008274 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722008275 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 743722008276 active site 743722008277 DNA polymerase IV; Validated; Region: PRK02406 743722008278 DNA binding site [nucleotide binding] 743722008279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008280 active site 743722008281 phosphorylation site [posttranslational modification] 743722008282 intermolecular recognition site; other site 743722008283 dimerization interface [polypeptide binding]; other site 743722008284 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 743722008285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008286 active site 743722008287 phosphorylation site [posttranslational modification] 743722008288 intermolecular recognition site; other site 743722008289 dimerization interface [polypeptide binding]; other site 743722008290 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 743722008291 catalytic residues [active] 743722008292 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 743722008293 GTPase RsgA; Reviewed; Region: PRK01889 743722008294 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 743722008295 RNA binding site [nucleotide binding]; other site 743722008296 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 743722008297 GTPase/Zn-binding domain interface [polypeptide binding]; other site 743722008298 GTP/Mg2+ binding site [chemical binding]; other site 743722008299 G4 box; other site 743722008300 G5 box; other site 743722008301 G1 box; other site 743722008302 Switch I region; other site 743722008303 G2 box; other site 743722008304 G3 box; other site 743722008305 Switch II region; other site 743722008306 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722008307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008308 active site 743722008309 phosphorylation site [posttranslational modification] 743722008310 intermolecular recognition site; other site 743722008311 dimerization interface [polypeptide binding]; other site 743722008312 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 743722008313 DNA binding residues [nucleotide binding] 743722008314 dimerization interface [polypeptide binding]; other site 743722008315 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722008316 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008317 active site 743722008318 phosphorylation site [posttranslational modification] 743722008319 intermolecular recognition site; other site 743722008320 dimerization interface [polypeptide binding]; other site 743722008321 LytTr DNA-binding domain; Region: LytTR; cl04498 743722008322 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008323 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722008324 ligand binding site [chemical binding]; other site 743722008325 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722008326 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722008327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 743722008328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722008329 ATP binding site [chemical binding]; other site 743722008330 Mg2+ binding site [ion binding]; other site 743722008331 G-X-G motif; other site 743722008332 aspartate aminotransferase; Provisional; Region: PRK07568 743722008333 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 743722008334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722008335 homodimer interface [polypeptide binding]; other site 743722008336 catalytic residue [active] 743722008337 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 743722008338 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 743722008339 tetramer interface [polypeptide binding]; other site 743722008340 TPP-binding site [chemical binding]; other site 743722008341 heterodimer interface [polypeptide binding]; other site 743722008342 phosphorylation loop region [posttranslational modification] 743722008343 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 743722008344 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 743722008345 PYR/PP interface [polypeptide binding]; other site 743722008346 dimer interface [polypeptide binding]; other site 743722008347 TPP binding site [chemical binding]; other site 743722008348 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 743722008349 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 743722008350 Tetramer interface [polypeptide binding]; other site 743722008351 active site 743722008352 FMN-binding site [chemical binding]; other site 743722008353 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 743722008354 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 743722008355 hinge; other site 743722008356 active site 743722008357 NeuB family; Region: NeuB; cl00496 743722008358 Chorismate mutase type II; Region: CM_2; cl00693 743722008359 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 743722008360 Prephenate dehydratase; Region: PDT; pfam00800 743722008361 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 743722008362 putative L-Phe binding site [chemical binding]; other site 743722008363 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 743722008364 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 743722008365 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 743722008366 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 743722008367 putative active site [active] 743722008368 putative NTP binding site [chemical binding]; other site 743722008369 putative nucleic acid binding site [nucleotide binding]; other site 743722008370 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 743722008371 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 743722008372 multi-copper oxidase-related protein; Provisional; Region: PLN00044 743722008373 Surface antigen; Region: Bac_surface_Ag; cl03097 743722008374 Rhomboid family; Region: Rhomboid; cl11446 743722008375 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 743722008376 Cupin domain; Region: Cupin_2; cl09118 743722008377 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722008378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722008379 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 743722008380 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722008381 ligand binding site [chemical binding]; other site 743722008382 flexible hinge region; other site 743722008383 Helix-turn-helix domains; Region: HTH; cl00088 743722008384 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 743722008385 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 743722008386 Cl- selectivity filter; other site 743722008387 Cl- binding residues [ion binding]; other site 743722008388 pore gating glutamate residue; other site 743722008389 dimer interface [polypeptide binding]; other site 743722008390 FOG: CBS domain [General function prediction only]; Region: COG0517 743722008391 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 743722008392 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 743722008393 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 743722008394 DNA binding site [nucleotide binding] 743722008395 catalytic residue [active] 743722008396 H2TH interface [polypeptide binding]; other site 743722008397 putative catalytic residues [active] 743722008398 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 743722008399 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 743722008400 nucleoside/Zn binding site; other site 743722008401 dimer interface [polypeptide binding]; other site 743722008402 catalytic motif [active] 743722008403 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 743722008404 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 743722008405 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722008406 putative ADP-binding pocket [chemical binding]; other site 743722008407 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 743722008408 putative dimer interface [polypeptide binding]; other site 743722008409 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 743722008410 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 743722008411 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722008412 Cell division inhibitor SulA; Region: SulA; cl01880 743722008413 DNA Polymerase Y-family; Region: PolY_like; cd03468 743722008414 active site 743722008415 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 743722008416 DNA binding site [nucleotide binding] 743722008417 Dodecin; Region: Dodecin; cl01328 743722008418 BCCT family transporter; Region: BCCT; cl00569 743722008419 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 743722008420 Ligand Binding Site [chemical binding]; other site 743722008421 Protein of unknown function (DUF819); Region: DUF819; cl02317 743722008422 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 743722008423 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 743722008424 active site 743722008425 heat shock protein 90; Provisional; Region: PRK05218 743722008426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722008427 ATP binding site [chemical binding]; other site 743722008428 Mg2+ binding site [ion binding]; other site 743722008429 G-X-G motif; other site 743722008430 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16916 743722008431 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 743722008432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008433 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 743722008434 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 743722008435 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 743722008436 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722008437 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 743722008438 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 743722008439 DNA binding residues [nucleotide binding] 743722008440 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 743722008441 Sodium:solute symporter family; Region: SSF; cl00456 743722008442 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 743722008443 putative active site [active] 743722008444 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 743722008445 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722008446 active site 743722008447 metal binding site [ion binding]; metal-binding site 743722008448 PQQ-like domain; Region: PQQ_2; pfam13360 743722008449 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 743722008450 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 743722008451 Trp docking motif [polypeptide binding]; other site 743722008452 active site 743722008453 PQQ-like domain; Region: PQQ_2; pfam13360 743722008454 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 743722008455 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722008456 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722008457 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008458 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 743722008459 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 743722008460 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722008461 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722008462 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722008463 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722008464 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008465 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722008466 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 743722008467 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722008468 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722008469 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008470 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722008471 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 743722008472 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 743722008473 Helix-turn-helix domains; Region: HTH; cl00088 743722008474 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 743722008475 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 743722008476 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722008477 Active site serine [active] 743722008478 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722008479 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722008480 M28 Zn-Peptidases; Region: M28_like_2; cd05662 743722008481 metal binding site [ion binding]; metal-binding site 743722008482 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 743722008483 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 743722008484 Walker A/P-loop; other site 743722008485 ATP binding site [chemical binding]; other site 743722008486 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 743722008487 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 743722008488 Q-loop/lid; other site 743722008489 ABC transporter signature motif; other site 743722008490 Walker B; other site 743722008491 D-loop; other site 743722008492 H-loop/switch region; other site 743722008493 Predicted amidohydrolase [General function prediction only]; Region: COG0388 743722008494 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 743722008495 putative active site [active] 743722008496 catalytic triad [active] 743722008497 dimer interface [polypeptide binding]; other site 743722008498 multimer interface [polypeptide binding]; other site 743722008499 methionine aminotransferase; Validated; Region: PRK09082 743722008500 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 743722008501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722008502 homodimer interface [polypeptide binding]; other site 743722008503 catalytic residue [active] 743722008504 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 743722008505 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 743722008506 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 743722008507 TM-ABC transporter signature motif; other site 743722008508 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 743722008509 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722008510 Walker A/P-loop; other site 743722008511 ATP binding site [chemical binding]; other site 743722008512 Q-loop/lid; other site 743722008513 ABC transporter signature motif; other site 743722008514 Walker B; other site 743722008515 D-loop; other site 743722008516 H-loop/switch region; other site 743722008517 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 743722008518 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 743722008519 Walker A/P-loop; other site 743722008520 ATP binding site [chemical binding]; other site 743722008521 Q-loop/lid; other site 743722008522 ABC transporter signature motif; other site 743722008523 Walker B; other site 743722008524 D-loop; other site 743722008525 H-loop/switch region; other site 743722008526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008527 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722008528 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722008529 DNA binding site [nucleotide binding] 743722008530 domain linker motif; other site 743722008531 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722008532 dimerization interface [polypeptide binding]; other site 743722008533 ligand binding site [chemical binding]; other site 743722008534 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 743722008535 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 743722008536 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 743722008537 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722008538 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 743722008539 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722008540 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 743722008541 ligand binding site [chemical binding]; other site 743722008542 flexible hinge region; other site 743722008543 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 743722008544 binding surface 743722008545 Tetratricopeptide repeat; Region: TPR_16; pfam13432 743722008546 TPR motif; other site 743722008547 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 743722008548 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722008549 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722008550 ligand binding site [chemical binding]; other site 743722008551 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 743722008552 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 743722008553 FeS/SAM binding site; other site 743722008554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008555 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 743722008556 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 743722008557 putative ligand binding site [chemical binding]; other site 743722008558 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 743722008559 RNA/DNA hybrid binding site [nucleotide binding]; other site 743722008560 active site 743722008561 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722008562 Helix-turn-helix domains; Region: HTH; cl00088 743722008563 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722008564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722008565 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 743722008566 DNA binding residues [nucleotide binding] 743722008567 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 743722008568 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 743722008569 Arginase family; Region: Arginase; cl00306 743722008570 imidazolonepropionase; Validated; Region: PRK09356 743722008571 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 743722008572 active site 743722008573 urocanate hydratase; Provisional; Region: PRK05414 743722008574 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 743722008575 active sites [active] 743722008576 tetramer interface [polypeptide binding]; other site 743722008577 Helix-turn-helix domains; Region: HTH; cl00088 743722008578 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 743722008579 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 743722008580 asparagine synthetase B; Provisional; Region: asnB; PRK09431 743722008581 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 743722008582 active site 743722008583 dimer interface [polypeptide binding]; other site 743722008584 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 743722008585 Ligand Binding Site [chemical binding]; other site 743722008586 Molecular Tunnel; other site 743722008587 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 743722008588 AMP-binding enzyme; Region: AMP-binding; cl15778 743722008589 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 743722008590 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722008591 nucleophilic elbow; other site 743722008592 catalytic triad; other site 743722008593 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 743722008594 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722008595 DNA-binding site [nucleotide binding]; DNA binding site 743722008596 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 743722008597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722008598 homodimer interface [polypeptide binding]; other site 743722008599 catalytic residue [active] 743722008600 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 743722008601 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 743722008602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722008603 catalytic residue [active] 743722008604 AAA domain; Region: AAA_26; pfam13500 743722008605 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722008606 biotin synthase; Region: bioB; TIGR00433 743722008607 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 743722008608 FeS/SAM binding site; other site 743722008609 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 743722008610 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 743722008611 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 743722008612 inhibitor-cofactor binding pocket; inhibition site 743722008613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722008614 catalytic residue [active] 743722008615 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722008616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722008617 EcsC protein family; Region: EcsC; pfam12787 743722008618 Survival protein SurE; Region: SurE; cl00448 743722008619 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 743722008620 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 743722008621 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722008622 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722008623 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722008624 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 743722008625 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 743722008626 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 743722008627 Rdx family; Region: Rdx; cl01407 743722008628 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 743722008629 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 743722008630 active site 743722008631 oxyanion hole [active] 743722008632 catalytic triad [active] 743722008633 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 743722008634 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 743722008635 active site 743722008636 oxyanion hole [active] 743722008637 catalytic triad [active] 743722008638 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 743722008639 Gram-negative bacterial tonB protein; Region: TonB; cl10048 743722008640 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 743722008641 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 743722008642 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722008643 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 743722008644 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 743722008645 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 743722008646 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 743722008647 putative dimer interface [polypeptide binding]; other site 743722008648 putative anticodon binding site; other site 743722008649 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 743722008650 homodimer interface [polypeptide binding]; other site 743722008651 motif 1; other site 743722008652 motif 2; other site 743722008653 active site 743722008654 motif 3; other site 743722008655 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 743722008656 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722008657 CoA-ligase; Region: Ligase_CoA; cl02894 743722008658 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 743722008659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722008660 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 743722008661 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 743722008662 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 743722008663 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 743722008664 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 743722008665 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 743722008666 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 743722008667 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 743722008668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008669 active site 743722008670 phosphorylation site [posttranslational modification] 743722008671 intermolecular recognition site; other site 743722008672 dimerization interface [polypeptide binding]; other site 743722008673 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 743722008674 Walker A motif; other site 743722008675 ATP binding site [chemical binding]; other site 743722008676 Walker B motif; other site 743722008677 arginine finger; other site 743722008678 Cytochrome c; Region: Cytochrom_C; cl11414 743722008679 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 743722008680 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 743722008681 Cu(I) binding site [ion binding]; other site 743722008682 Divergent AAA domain; Region: AAA_4; pfam04326 743722008683 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 743722008684 putative substrate translocation pore; other site 743722008685 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722008686 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 743722008687 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722008688 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 743722008689 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 743722008690 dimerization interface [polypeptide binding]; other site 743722008691 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 743722008692 dimer interface [polypeptide binding]; other site 743722008693 phosphorylation site [posttranslational modification] 743722008694 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722008695 ATP binding site [chemical binding]; other site 743722008696 Mg2+ binding site [ion binding]; other site 743722008697 G-X-G motif; other site 743722008698 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722008699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008700 active site 743722008701 phosphorylation site [posttranslational modification] 743722008702 intermolecular recognition site; other site 743722008703 dimerization interface [polypeptide binding]; other site 743722008704 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 743722008705 DNA binding site [nucleotide binding] 743722008706 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 743722008707 DNA gyrase subunit A; Validated; Region: PRK05560 743722008708 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 743722008709 CAP-like domain; other site 743722008710 active site 743722008711 primary dimer interface [polypeptide binding]; other site 743722008712 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 743722008713 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 743722008714 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 743722008715 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 743722008716 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 743722008717 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 743722008718 binding surface 743722008719 TPR motif; other site 743722008720 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 743722008721 TPR motif; other site 743722008722 binding surface 743722008723 Tetratricopeptide repeat; Region: TPR_16; pfam13432 743722008724 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 743722008725 binding surface 743722008726 TPR motif; other site 743722008727 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 743722008728 binding surface 743722008729 TPR motif; other site 743722008730 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 743722008731 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 743722008732 putative active site [active] 743722008733 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 743722008734 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 743722008735 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 743722008736 ATP binding site [chemical binding]; other site 743722008737 putative Mg++ binding site [ion binding]; other site 743722008738 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 743722008739 nucleotide binding region [chemical binding]; other site 743722008740 ATP-binding site [chemical binding]; other site 743722008741 RQC domain; Region: RQC; cl09632 743722008742 HRDC domain; Region: HRDC; cl02578 743722008743 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 743722008744 NeuB family; Region: NeuB; cl00496 743722008745 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 743722008746 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 743722008747 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 743722008748 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 743722008749 Uncharacterized conserved protein [Function unknown]; Region: COG2308 743722008750 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 743722008751 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722008752 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722008753 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 743722008754 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722008755 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 743722008756 active site 743722008757 catalytic tetrad [active] 743722008758 NMT1-like family; Region: NMT1_2; cl15260 743722008759 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 743722008760 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 743722008761 catalytic core [active] 743722008762 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 743722008763 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 743722008764 FeS/SAM binding site; other site 743722008765 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 743722008766 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722008767 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 743722008768 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 743722008769 homodimer interface [polypeptide binding]; other site 743722008770 substrate-cofactor binding pocket; other site 743722008771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722008772 catalytic residue [active] 743722008773 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 743722008774 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 743722008775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008776 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 743722008777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008778 HI0933-like protein; Region: HI0933_like; pfam03486 743722008779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008780 putative oxidoreductase; Provisional; Region: PRK11579 743722008781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008782 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722008783 Uncharacterized conserved protein [Function unknown]; Region: COG3391 743722008784 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 743722008785 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 743722008786 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722008787 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 743722008788 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 743722008789 active site 743722008790 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 743722008791 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 743722008792 S-adenosylmethionine binding site [chemical binding]; other site 743722008793 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 743722008794 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 743722008795 catalytic motif [active] 743722008796 Zn binding site [ion binding]; other site 743722008797 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 743722008798 Uncharacterized conserved protein [Function unknown]; Region: COG1739 743722008799 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 743722008800 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 743722008801 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 743722008802 Helix-turn-helix domains; Region: HTH; cl00088 743722008803 WYL domain; Region: WYL; cl14852 743722008804 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722008805 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 743722008806 YceI-like domain; Region: YceI; cl01001 743722008807 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722008808 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722008809 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008810 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722008811 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 743722008812 N-terminal plug; other site 743722008813 ligand-binding site [chemical binding]; other site 743722008814 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722008815 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722008816 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722008817 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008818 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722008819 FecR protein; Region: FecR; pfam04773 743722008820 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722008821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722008822 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 743722008823 DNA binding residues [nucleotide binding] 743722008824 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 743722008825 Ligand Binding Site [chemical binding]; other site 743722008826 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 743722008827 UbiA prenyltransferase family; Region: UbiA; cl00337 743722008828 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 743722008829 S-adenosylmethionine binding site [chemical binding]; other site 743722008830 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 743722008831 structural tetrad; other site 743722008832 Surface antigen; Region: Bac_surface_Ag; cl03097 743722008833 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722008834 Histidine kinase; Region: His_kinase; pfam06580 743722008835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008836 Response regulator receiver domain; Region: Response_reg; pfam00072 743722008837 active site 743722008838 phosphorylation site [posttranslational modification] 743722008839 intermolecular recognition site; other site 743722008840 dimerization interface [polypeptide binding]; other site 743722008841 LytTr DNA-binding domain; Region: LytTR; cl04498 743722008842 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722008843 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 743722008844 Helix-turn-helix domains; Region: HTH; cl00088 743722008845 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 743722008846 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722008847 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 743722008848 FtsX-like permease family; Region: FtsX; cl15850 743722008849 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 743722008850 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 743722008851 Walker A/P-loop; other site 743722008852 ATP binding site [chemical binding]; other site 743722008853 Q-loop/lid; other site 743722008854 ABC transporter signature motif; other site 743722008855 Walker B; other site 743722008856 D-loop; other site 743722008857 H-loop/switch region; other site 743722008858 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722008859 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 743722008860 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 743722008861 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722008862 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722008863 Histidine kinase; Region: His_kinase; pfam06580 743722008864 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722008865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008866 active site 743722008867 phosphorylation site [posttranslational modification] 743722008868 intermolecular recognition site; other site 743722008869 dimerization interface [polypeptide binding]; other site 743722008870 LytTr DNA-binding domain; Region: LytTR; cl04498 743722008871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722008872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722008873 active site 743722008874 phosphorylation site [posttranslational modification] 743722008875 intermolecular recognition site; other site 743722008876 dimerization interface [polypeptide binding]; other site 743722008877 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 743722008878 DNA binding site [nucleotide binding] 743722008879 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 743722008880 dimer interface [polypeptide binding]; other site 743722008881 phosphorylation site [posttranslational modification] 743722008882 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722008883 ATP binding site [chemical binding]; other site 743722008884 Mg2+ binding site [ion binding]; other site 743722008885 G-X-G motif; other site 743722008886 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 743722008887 Kelch motif; Region: Kelch_1; cl02701 743722008888 Kelch motif; Region: Kelch_1; cl02701 743722008889 nitrile-specifier protein; Region: PLN02193 743722008890 Kelch motif; Region: Kelch_1; cl02701 743722008891 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722008892 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 743722008893 active site 743722008894 catalytic tetrad [active] 743722008895 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 743722008896 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 743722008897 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 743722008898 putative DNA binding site [nucleotide binding]; other site 743722008899 putative homodimer interface [polypeptide binding]; other site 743722008900 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 743722008901 glutamate dehydrogenase; Provisional; Region: PRK09414 743722008902 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 743722008903 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 743722008904 NAD(P) binding site [chemical binding]; other site 743722008905 DNA polymerase IV; Provisional; Region: PRK14133 743722008906 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 743722008907 active site 743722008908 DNA binding site [nucleotide binding] 743722008909 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 743722008910 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 743722008911 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 743722008912 generic binding surface II; other site 743722008913 generic binding surface I; other site 743722008914 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 743722008915 active site 743722008916 substrate binding site [chemical binding]; other site 743722008917 catalytic site [active] 743722008918 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 743722008919 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 743722008920 GIY-YIG motif/motif A; other site 743722008921 active site 743722008922 catalytic site [active] 743722008923 putative DNA binding site [nucleotide binding]; other site 743722008924 metal binding site [ion binding]; metal-binding site 743722008925 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722008926 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008927 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722008928 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 743722008929 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 743722008930 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722008931 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 743722008932 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 743722008933 Sulfatase; Region: Sulfatase; cl10460 743722008934 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722008935 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 743722008936 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 743722008937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722008939 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 743722008940 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 743722008941 active site 743722008942 nucleophile elbow; other site 743722008943 Nucleoside recognition; Region: Gate; cl00486 743722008944 Nucleoside recognition; Region: Gate; cl00486 743722008945 OsmC-like protein; Region: OsmC; cl00767 743722008946 pantothenate kinase; Provisional; Region: PRK05439 743722008947 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 743722008948 ATP-binding site [chemical binding]; other site 743722008949 CoA-binding site [chemical binding]; other site 743722008950 Mg2+-binding site [ion binding]; other site 743722008951 Mechanosensitive ion channel; Region: MS_channel; pfam00924 743722008952 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722008953 Cupin domain; Region: Cupin_2; cl09118 743722008954 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 743722008955 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 743722008956 metal-binding site [ion binding] 743722008957 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722008958 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722008959 Phosphotransferase enzyme family; Region: APH; pfam01636 743722008960 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 743722008961 active site 743722008962 ATP binding site [chemical binding]; other site 743722008963 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 743722008964 substrate binding site [chemical binding]; other site 743722008965 GTP-binding protein LepA; Provisional; Region: PRK05433 743722008966 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 743722008967 G1 box; other site 743722008968 putative GEF interaction site [polypeptide binding]; other site 743722008969 GTP/Mg2+ binding site [chemical binding]; other site 743722008970 Switch I region; other site 743722008971 G2 box; other site 743722008972 G3 box; other site 743722008973 Switch II region; other site 743722008974 G4 box; other site 743722008975 G5 box; other site 743722008976 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 743722008977 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 743722008978 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 743722008979 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 743722008980 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 743722008981 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 743722008982 homodimer interface [polypeptide binding]; other site 743722008983 NADP binding site [chemical binding]; other site 743722008984 substrate binding site [chemical binding]; other site 743722008985 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 743722008986 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 743722008987 Metal-binding active site; metal-binding site 743722008988 ApbE family; Region: ApbE; cl00643 743722008989 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722008990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722008991 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 743722008992 Protein of unknown function, DUF488; Region: DUF488; cl01246 743722008993 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 743722008994 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 743722008995 active site 743722008996 DNA binding site [nucleotide binding] 743722008997 Int/Topo IB signature motif; other site 743722008998 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 743722008999 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 743722009000 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 743722009001 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 743722009002 NlpC/P60 family; Region: NLPC_P60; cl11438 743722009003 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 743722009004 active site 743722009005 B-cell receptor-associated protein 31-like; Region: Bap31; cl02219 743722009006 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 743722009007 oligomer interface [polypeptide binding]; other site 743722009008 active site residues [active] 743722009009 HNH endonuclease; Region: HNH_3; pfam13392 743722009010 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; cl16911 743722009011 cofactor binding site; other site 743722009012 DNA binding site [nucleotide binding] 743722009013 substrate interaction site [chemical binding]; other site 743722009014 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; cl16911 743722009015 VirE N-terminal domain; Region: VirE_N; pfam08800 743722009016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 743722009017 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722009018 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 743722009019 DNA binding residues [nucleotide binding] 743722009020 dimerization interface [polypeptide binding]; other site 743722009021 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 743722009022 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 743722009023 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 743722009024 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 743722009025 active site 743722009026 HIGH motif; other site 743722009027 dimer interface [polypeptide binding]; other site 743722009028 KMSKS motif; other site 743722009029 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 743722009030 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 743722009031 Substrate-binding site [chemical binding]; other site 743722009032 Substrate specificity [chemical binding]; other site 743722009033 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 743722009034 Ligand binding site; other site 743722009035 oligomer interface; other site 743722009036 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 743722009037 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 743722009038 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 743722009039 Walker A/P-loop; other site 743722009040 ATP binding site [chemical binding]; other site 743722009041 Q-loop/lid; other site 743722009042 ABC transporter signature motif; other site 743722009043 Walker B; other site 743722009044 D-loop; other site 743722009045 H-loop/switch region; other site 743722009046 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 743722009047 putative acyl-acceptor binding pocket; other site 743722009048 helicase 45; Provisional; Region: PTZ00424 743722009049 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 743722009050 ATP binding site [chemical binding]; other site 743722009051 Mg++ binding site [ion binding]; other site 743722009052 motif III; other site 743722009053 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 743722009054 nucleotide binding region [chemical binding]; other site 743722009055 ATP-binding site [chemical binding]; other site 743722009056 CTP synthetase; Validated; Region: pyrG; PRK05380 743722009057 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 743722009058 Catalytic site [active] 743722009059 active site 743722009060 UTP binding site [chemical binding]; other site 743722009061 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 743722009062 active site 743722009063 putative oxyanion hole; other site 743722009064 catalytic triad [active] 743722009065 membrane protein insertase; Provisional; Region: PRK01318 743722009066 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 743722009067 PAS domain S-box; Region: sensory_box; TIGR00229 743722009068 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722009069 putative active site [active] 743722009070 heme pocket [chemical binding]; other site 743722009071 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 743722009072 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 743722009073 dimer interface [polypeptide binding]; other site 743722009074 phosphorylation site [posttranslational modification] 743722009075 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722009076 ATP binding site [chemical binding]; other site 743722009077 G-X-G motif; other site 743722009078 Response regulator receiver domain; Region: Response_reg; pfam00072 743722009079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009080 active site 743722009081 phosphorylation site [posttranslational modification] 743722009082 intermolecular recognition site; other site 743722009083 dimerization interface [polypeptide binding]; other site 743722009084 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722009085 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 743722009086 ligand binding site [chemical binding]; other site 743722009087 flexible hinge region; other site 743722009088 Helix-turn-helix domains; Region: HTH; cl00088 743722009089 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 743722009090 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 743722009091 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 743722009092 FeS/SAM binding site; other site 743722009093 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 743722009094 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 743722009095 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 743722009096 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722009097 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722009098 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 743722009099 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 743722009100 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 743722009101 Low-spin heme binding site [chemical binding]; other site 743722009102 Putative water exit pathway; other site 743722009103 Binuclear center (active site) [active] 743722009104 Putative proton exit pathway; other site 743722009105 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 743722009106 Uncharacterized protein family (UPF0233); Region: UPF0233; cl11506 743722009107 Cytochrome c; Region: Cytochrom_C; cl11414 743722009108 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 743722009109 4Fe-4S binding domain; Region: Fer4_5; pfam12801 743722009110 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 743722009111 FixH; Region: FixH; cl01254 743722009112 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 743722009113 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; cd03467 743722009114 iron-sulfur cluster [ion binding]; other site 743722009115 [2Fe-2S] cluster binding site [ion binding]; other site 743722009116 TfoX N-terminal domain; Region: TfoX_N; cl01167 743722009117 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 743722009118 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 743722009119 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 743722009120 quinone interaction residues [chemical binding]; other site 743722009121 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 743722009122 active site 743722009123 catalytic residues [active] 743722009124 FMN binding site [chemical binding]; other site 743722009125 substrate binding site [chemical binding]; other site 743722009126 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 743722009127 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 743722009128 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 743722009129 ABC transporter; Region: ABC_tran_2; pfam12848 743722009130 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 743722009131 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 743722009132 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 743722009133 EVE domain; Region: EVE; cl00728 743722009134 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 743722009135 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 743722009136 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 743722009137 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 743722009138 catalytic residues [active] 743722009139 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 743722009140 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 743722009141 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 743722009142 active site 743722009143 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 743722009144 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 743722009145 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 743722009146 active site 743722009147 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 743722009148 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 743722009149 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 743722009150 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722009151 FtsX-like permease family; Region: FtsX; cl15850 743722009152 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 743722009153 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 743722009154 putative active site [active] 743722009155 substrate binding site [chemical binding]; other site 743722009156 putative cosubstrate binding site; other site 743722009157 catalytic site [active] 743722009158 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 743722009159 substrate binding site [chemical binding]; other site 743722009160 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 743722009161 homodimer interface [polypeptide binding]; other site 743722009162 substrate-cofactor binding pocket; other site 743722009163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722009164 catalytic residue [active] 743722009165 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 743722009166 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 743722009167 RNA binding surface [nucleotide binding]; other site 743722009168 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 743722009169 active site 743722009170 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722009171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009172 active site 743722009173 phosphorylation site [posttranslational modification] 743722009174 intermolecular recognition site; other site 743722009175 dimerization interface [polypeptide binding]; other site 743722009176 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 743722009177 DNA binding residues [nucleotide binding] 743722009178 dimerization interface [polypeptide binding]; other site 743722009179 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 743722009180 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 743722009181 NAD(P) binding site [chemical binding]; other site 743722009182 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 743722009183 catalytic residues [active] 743722009184 catalytic nucleophile [active] 743722009185 Recombinase; Region: Recombinase; pfam07508 743722009186 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 743722009187 Antirestriction protein (ArdA); Region: ArdA; cl01953 743722009188 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722009189 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722009190 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722009191 TIR domain; Region: TIR_2; cl15770 743722009192 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 743722009193 Response regulator receiver domain; Region: Response_reg; pfam00072 743722009194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009195 active site 743722009196 phosphorylation site [posttranslational modification] 743722009197 dimerization interface [polypeptide binding]; other site 743722009198 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 743722009199 GIY-YIG motif/motif A; other site 743722009200 active site 743722009201 catalytic site [active] 743722009202 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 743722009203 Conjugative transposon protein TraO; Region: TraO; pfam10626 743722009204 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 743722009205 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 743722009206 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 743722009207 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 743722009208 Protein of unknown function (DUF3989); Region: DUF3989; pfam13150 743722009209 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 743722009210 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 743722009211 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 743722009212 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 743722009213 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 743722009214 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 743722009215 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 743722009216 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 743722009217 non-specific DNA binding site [nucleotide binding]; other site 743722009218 salt bridge; other site 743722009219 sequence-specific DNA binding site [nucleotide binding]; other site 743722009220 AAA domain; Region: AAA_23; pfam13476 743722009221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009222 Walker A/P-loop; other site 743722009223 ATP binding site [chemical binding]; other site 743722009224 Q-loop/lid; other site 743722009225 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 743722009226 AAA domain; Region: AAA_21; pfam13304 743722009227 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 743722009228 Q-loop/lid; other site 743722009229 ABC transporter signature motif; other site 743722009230 Walker B; other site 743722009231 D-loop; other site 743722009232 H-loop/switch region; other site 743722009233 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 743722009234 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 743722009235 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 743722009236 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 743722009237 P-loop; other site 743722009238 Magnesium ion binding site [ion binding]; other site 743722009239 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 743722009240 YWFCY protein; Region: YWFCY; pfam14293 743722009241 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 743722009242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009243 Walker A motif; other site 743722009244 ATP binding site [chemical binding]; other site 743722009245 Walker B motif; other site 743722009246 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722009247 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 743722009248 ligand binding site [chemical binding]; other site 743722009249 flexible hinge region; other site 743722009250 Helix-turn-helix domains; Region: HTH; cl00088 743722009251 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 743722009252 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 743722009253 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722009254 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 743722009255 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722009256 active site residue [active] 743722009257 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722009258 active site residue [active] 743722009259 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; cl16911 743722009260 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 743722009261 catalytic residues [active] 743722009262 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 743722009263 Sulphur transport; Region: Sulf_transp; cl01018 743722009264 Predicted transporter component [General function prediction only]; Region: COG2391 743722009265 Sulphur transport; Region: Sulf_transp; cl01018 743722009266 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 743722009267 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722009268 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722009269 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722009270 active site residue [active] 743722009271 Cupin domain; Region: Cupin_2; cl09118 743722009272 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722009273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722009274 Isochorismatase family; Region: Isochorismatase; pfam00857 743722009275 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 743722009276 catalytic triad [active] 743722009277 conserved cis-peptide bond; other site 743722009278 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722009279 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 743722009280 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722009281 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 743722009282 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 743722009283 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 743722009284 catalytic residues [active] 743722009285 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 743722009286 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 743722009287 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 743722009288 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722009289 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 743722009290 catalytic residues [active] 743722009291 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 743722009292 catalytic residues [active] 743722009293 RteC protein; Region: RteC; pfam09357 743722009294 DNA topoisomerase III; Provisional; Region: PRK07726 743722009295 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 743722009296 active site 743722009297 putative interdomain interaction site [polypeptide binding]; other site 743722009298 putative metal-binding site [ion binding]; other site 743722009299 putative nucleotide binding site [chemical binding]; other site 743722009300 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 743722009301 domain I; other site 743722009302 DNA binding groove [nucleotide binding] 743722009303 phosphate binding site [ion binding]; other site 743722009304 domain II; other site 743722009305 domain III; other site 743722009306 nucleotide binding site [chemical binding]; other site 743722009307 catalytic site [active] 743722009308 domain IV; other site 743722009309 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 743722009310 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 743722009311 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 743722009312 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 743722009313 RteC protein; Region: RteC; pfam09357 743722009314 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 743722009315 Walker A motif; other site 743722009316 ATP binding site [chemical binding]; other site 743722009317 Walker B motif; other site 743722009318 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 743722009319 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 743722009320 active site 743722009321 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 743722009322 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722009323 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 743722009324 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 743722009325 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722009326 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 743722009327 protein binding site [polypeptide binding]; other site 743722009328 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 743722009329 Domain interface; other site 743722009330 Peptide binding site; other site 743722009331 Active site tetrad [active] 743722009332 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 743722009333 S-adenosylmethionine binding site [chemical binding]; other site 743722009334 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 743722009335 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722009336 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722009337 adenylosuccinate lyase; Provisional; Region: PRK09285 743722009338 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 743722009339 tetramer interface [polypeptide binding]; other site 743722009340 active site 743722009341 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 743722009342 NifU-like domain; Region: NifU; cl00484 743722009343 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 743722009344 active site 743722009345 dimerization interface [polypeptide binding]; other site 743722009346 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 743722009347 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 743722009348 dimer interface [polypeptide binding]; other site 743722009349 Citrate synthase; Region: Citrate_synt; pfam00285 743722009350 active site 743722009351 citrylCoA binding site [chemical binding]; other site 743722009352 NADH binding [chemical binding]; other site 743722009353 cationic pore residues; other site 743722009354 oxalacetate/citrate binding site [chemical binding]; other site 743722009355 coenzyme A binding site [chemical binding]; other site 743722009356 catalytic triad [active] 743722009357 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 743722009358 Helix-turn-helix domains; Region: HTH; cl00088 743722009359 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 743722009360 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722009361 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 743722009362 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722009363 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 743722009364 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 743722009365 substrate binding site [chemical binding]; other site 743722009366 oxyanion hole (OAH) forming residues; other site 743722009367 trimer interface [polypeptide binding]; other site 743722009368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722009369 Helix-turn-helix domains; Region: HTH; cl00088 743722009370 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722009371 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722009372 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 743722009373 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 743722009374 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722009375 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 743722009376 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 743722009377 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 743722009378 active site 743722009379 metal binding site [ion binding]; metal-binding site 743722009380 nudix motif; other site 743722009381 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 743722009382 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 743722009383 S-adenosylmethionine binding site [chemical binding]; other site 743722009384 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 743722009385 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722009386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722009387 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722009388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722009389 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722009390 nucleoside transporter; Region: 2A0110; TIGR00889 743722009391 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 743722009392 putative substrate translocation pore; other site 743722009393 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 743722009394 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 743722009395 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 743722009396 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 743722009397 active site 743722009398 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 743722009399 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 743722009400 G1 box; other site 743722009401 putative GEF interaction site [polypeptide binding]; other site 743722009402 GTP/Mg2+ binding site [chemical binding]; other site 743722009403 Switch I region; other site 743722009404 G2 box; other site 743722009405 G3 box; other site 743722009406 Switch II region; other site 743722009407 G4 box; other site 743722009408 G5 box; other site 743722009409 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 743722009410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 743722009411 TolB amino-terminal domain; Region: TolB_N; cl00639 743722009412 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 743722009413 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 743722009414 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 743722009415 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 743722009416 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 743722009417 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 743722009418 putative catalytic cysteine [active] 743722009419 gamma-glutamyl kinase; Provisional; Region: PRK05429 743722009420 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 743722009421 nucleotide binding site [chemical binding]; other site 743722009422 homotetrameric interface [polypeptide binding]; other site 743722009423 putative phosphate binding site [ion binding]; other site 743722009424 putative allosteric binding site; other site 743722009425 PUA domain; Region: PUA; cl00607 743722009426 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 743722009427 Ligand Binding Site [chemical binding]; other site 743722009428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722009429 Helix-turn-helix domains; Region: HTH; cl00088 743722009430 putative peptidase; Provisional; Region: PRK11649 743722009431 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 743722009432 active site 743722009433 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 743722009434 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 743722009435 putative ATP binding site [chemical binding]; other site 743722009436 putative substrate interface [chemical binding]; other site 743722009437 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 743722009438 DNA binding residues [nucleotide binding] 743722009439 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 743722009440 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 743722009441 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722009442 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722009443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722009444 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 743722009445 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 743722009446 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722009447 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722009448 EamA-like transporter family; Region: EamA; cl01037 743722009449 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 743722009450 EamA-like transporter family; Region: EamA; cl01037 743722009451 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 743722009452 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 743722009453 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 743722009454 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 743722009455 Domain of unknown function DUF20; Region: UPF0118; pfam01594 743722009456 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 743722009457 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 743722009458 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 743722009459 active site 743722009460 putative interdomain interaction site [polypeptide binding]; other site 743722009461 putative metal-binding site [ion binding]; other site 743722009462 putative nucleotide binding site [chemical binding]; other site 743722009463 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 743722009464 domain I; other site 743722009465 DNA binding groove [nucleotide binding] 743722009466 phosphate binding site [ion binding]; other site 743722009467 domain II; other site 743722009468 domain III; other site 743722009469 nucleotide binding site [chemical binding]; other site 743722009470 catalytic site [active] 743722009471 domain IV; other site 743722009472 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 743722009473 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 743722009474 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 743722009475 tetrameric interface [polypeptide binding]; other site 743722009476 activator binding site; other site 743722009477 NADP binding site [chemical binding]; other site 743722009478 substrate binding site [chemical binding]; other site 743722009479 catalytic residues [active] 743722009480 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722009481 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 743722009482 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722009483 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 743722009484 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 743722009485 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 743722009486 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 743722009487 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 743722009488 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722009489 catalytic residue [active] 743722009490 L-lysine aminotransferase; Provisional; Region: PRK08297 743722009491 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 743722009492 inhibitor-cofactor binding pocket; inhibition site 743722009493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722009494 catalytic residue [active] 743722009495 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 743722009496 Domain of unknown function DUF21; Region: DUF21; pfam01595 743722009497 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 743722009498 Transporter associated domain; Region: CorC_HlyC; cl08393 743722009499 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 743722009500 conserved cys residue [active] 743722009501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722009502 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722009503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722009504 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 743722009505 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 743722009506 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 743722009507 nudix motif; other site 743722009508 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 743722009509 active site 743722009510 DNA binding site [nucleotide binding] 743722009511 Int/Topo IB signature motif; other site 743722009512 catalytic residues [active] 743722009513 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 743722009514 phosphate binding site [ion binding]; other site 743722009515 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 743722009516 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 743722009517 phosphate binding site [ion binding]; other site 743722009518 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 743722009519 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 743722009520 active site 743722009521 Acyl transferase domain; Region: Acyl_transf_1; cl08282 743722009522 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 743722009523 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 743722009524 Phosphopantetheine attachment site; Region: PP-binding; cl09936 743722009525 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 743722009526 putative NADP binding site [chemical binding]; other site 743722009527 active site 743722009528 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 743722009529 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 743722009530 active site 743722009531 Acyl transferase domain; Region: Acyl_transf_1; cl08282 743722009532 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 743722009533 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 743722009534 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 743722009535 Phosphopantetheine attachment site; Region: PP-binding; cl09936 743722009536 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 743722009537 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 743722009538 S-adenosylmethionine binding site [chemical binding]; other site 743722009539 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722009540 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 743722009541 putative substrate translocation pore; other site 743722009542 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 743722009543 sphingolipid delta-4 desaturase; Region: PLN02579 743722009544 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 743722009545 putative di-iron ligands [ion binding]; other site 743722009546 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 743722009547 heme binding pocket [chemical binding]; other site 743722009548 heme ligand [chemical binding]; other site 743722009549 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722009550 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722009551 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722009552 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722009553 Active site serine [active] 743722009554 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 743722009555 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 743722009556 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722009557 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 743722009558 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 743722009559 N-terminal plug; other site 743722009560 ligand-binding site [chemical binding]; other site 743722009561 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 743722009562 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 743722009563 intersubunit interface [polypeptide binding]; other site 743722009564 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 743722009565 ABC-ATPase subunit interface; other site 743722009566 dimer interface [polypeptide binding]; other site 743722009567 putative PBP binding regions; other site 743722009568 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 743722009569 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 743722009570 Walker A/P-loop; other site 743722009571 ATP binding site [chemical binding]; other site 743722009572 Q-loop/lid; other site 743722009573 ABC transporter signature motif; other site 743722009574 Walker B; other site 743722009575 D-loop; other site 743722009576 H-loop/switch region; other site 743722009577 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722009578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722009579 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 743722009580 S-adenosylmethionine binding site [chemical binding]; other site 743722009581 L-type amino acid transporter; Region: 2A0308; TIGR00911 743722009582 Condensation domain; Region: Condensation; pfam00668 743722009583 peptide synthase; Validated; Region: PRK05691 743722009584 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 743722009585 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 743722009586 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 743722009587 active site 743722009588 TDP-binding site; other site 743722009589 acceptor substrate-binding pocket; other site 743722009590 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 743722009591 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 743722009592 active site 743722009593 TDP-binding site; other site 743722009594 acceptor substrate-binding pocket; other site 743722009595 homodimer interface [polypeptide binding]; other site 743722009596 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 743722009597 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722009598 hypothetical protein; Provisional; Region: PRK11770 743722009599 Domain of unknown function (DUF307); Region: DUF307; pfam03733 743722009600 Domain of unknown function (DUF307); Region: DUF307; pfam03733 743722009601 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 743722009602 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 743722009603 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722009604 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 743722009605 PAS fold; Region: PAS_4; pfam08448 743722009606 PAS fold; Region: PAS_3; pfam08447 743722009607 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 743722009608 Histidine kinase; Region: HisKA_3; pfam07730 743722009609 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722009610 ATP binding site [chemical binding]; other site 743722009611 Mg2+ binding site [ion binding]; other site 743722009612 G-X-G motif; other site 743722009613 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722009614 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 743722009615 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 743722009616 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 743722009617 putative NAD(P) binding site [chemical binding]; other site 743722009618 active site 743722009619 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 743722009620 dimerization interface [polypeptide binding]; other site 743722009621 metal binding site [ion binding]; metal-binding site 743722009622 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 743722009623 Competence-damaged protein; Region: CinA; cl00666 743722009624 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 743722009625 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 743722009626 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 743722009627 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 743722009628 trimer interface [polypeptide binding]; other site 743722009629 dimer interface [polypeptide binding]; other site 743722009630 putative active site [active] 743722009631 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 743722009632 MPT binding site; other site 743722009633 trimer interface [polypeptide binding]; other site 743722009634 hypothetical protein; Validated; Region: PRK07411 743722009635 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 743722009636 ATP binding site [chemical binding]; other site 743722009637 substrate interface [chemical binding]; other site 743722009638 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722009639 active site residue [active] 743722009640 Ubiquitin-like proteins; Region: UBQ; cl00155 743722009641 charged pocket; other site 743722009642 hydrophobic patch; other site 743722009643 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 743722009644 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 743722009645 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 743722009646 dimer interface [polypeptide binding]; other site 743722009647 putative functional site; other site 743722009648 putative MPT binding site; other site 743722009649 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 743722009650 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 743722009651 FeS/SAM binding site; other site 743722009652 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 743722009653 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 743722009654 Ligand binding site; other site 743722009655 metal-binding site 743722009656 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 743722009657 XdhC Rossmann domain; Region: XdhC_C; pfam13478 743722009658 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 743722009659 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 743722009660 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722009661 catalytic residue [active] 743722009662 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 743722009663 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722009664 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009665 active site 743722009666 phosphorylation site [posttranslational modification] 743722009667 intermolecular recognition site; other site 743722009668 dimerization interface [polypeptide binding]; other site 743722009669 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 743722009670 DNA binding residues [nucleotide binding] 743722009671 dimerization interface [polypeptide binding]; other site 743722009672 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 743722009673 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 743722009674 Histidine kinase; Region: HisKA_3; pfam07730 743722009675 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722009676 ATP binding site [chemical binding]; other site 743722009677 Mg2+ binding site [ion binding]; other site 743722009678 G-X-G motif; other site 743722009679 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 743722009680 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 743722009681 nitrite reductase subunit NirD; Provisional; Region: PRK14989 743722009682 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722009683 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 743722009684 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 743722009685 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 743722009686 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 743722009687 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 743722009688 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 743722009689 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 743722009690 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 743722009691 dimer interface [polypeptide binding]; other site 743722009692 putative functional site; other site 743722009693 putative MPT binding site; other site 743722009694 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 743722009695 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 743722009696 putative substrate translocation pore; other site 743722009697 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 743722009698 [4Fe-4S] binding site [ion binding]; other site 743722009699 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 743722009700 molybdopterin cofactor binding site; other site 743722009701 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 743722009702 molybdopterin cofactor binding site; other site 743722009703 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 743722009704 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 743722009705 Rubredoxin; Region: Rubredoxin; pfam00301 743722009706 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 743722009707 iron binding site [ion binding]; other site 743722009708 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722009709 Helix-turn-helix domains; Region: HTH; cl00088 743722009710 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722009711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722009712 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722009713 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722009714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009715 Walker A/P-loop; other site 743722009716 ATP binding site [chemical binding]; other site 743722009717 Q-loop/lid; other site 743722009718 ABC transporter signature motif; other site 743722009719 Walker B; other site 743722009720 D-loop; other site 743722009721 H-loop/switch region; other site 743722009722 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722009723 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722009724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009725 Walker A/P-loop; other site 743722009726 ATP binding site [chemical binding]; other site 743722009727 Q-loop/lid; other site 743722009728 ABC transporter signature motif; other site 743722009729 Walker B; other site 743722009730 D-loop; other site 743722009731 H-loop/switch region; other site 743722009732 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 743722009733 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 743722009734 major facilitator superfamily transporter; Provisional; Region: PRK05122 743722009735 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 743722009736 putative substrate translocation pore; other site 743722009737 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 743722009738 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 743722009739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009740 Walker A/P-loop; other site 743722009741 ATP binding site [chemical binding]; other site 743722009742 Q-loop/lid; other site 743722009743 ABC transporter signature motif; other site 743722009744 Walker B; other site 743722009745 D-loop; other site 743722009746 H-loop/switch region; other site 743722009747 hypothetical protein; Region: PHA00476 743722009748 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 743722009749 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 743722009750 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722009751 Active site serine [active] 743722009752 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 743722009753 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 743722009754 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 743722009755 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 743722009756 active site 743722009757 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 743722009758 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 743722009759 MgtC family; Region: MgtC; pfam02308 743722009760 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 743722009761 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 743722009762 aromatic amino acid transporter; Provisional; Region: PRK10238 743722009763 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 743722009764 substrate binding site [chemical binding]; other site 743722009765 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 743722009766 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 743722009767 putative active site [active] 743722009768 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 743722009769 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 743722009770 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 743722009771 classical (c) SDRs; Region: SDR_c; cd05233 743722009772 NAD(P) binding site [chemical binding]; other site 743722009773 active site 743722009774 Response regulator receiver domain; Region: Response_reg; pfam00072 743722009775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009776 active site 743722009777 phosphorylation site [posttranslational modification] 743722009778 intermolecular recognition site; other site 743722009779 dimerization interface [polypeptide binding]; other site 743722009780 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 743722009781 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 743722009782 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 743722009783 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722009784 Serine endopeptidase inhibitors; Region: Inhibitor_I10; pfam12559 743722009785 EamA-like transporter family; Region: EamA; cl01037 743722009786 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 743722009787 EamA-like transporter family; Region: EamA; cl01037 743722009788 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 743722009789 putative active site [active] 743722009790 heme pocket [chemical binding]; other site 743722009791 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 743722009792 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 743722009793 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 743722009794 catalytic site [active] 743722009795 active site 743722009796 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 743722009797 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 743722009798 dimerization interface [polypeptide binding]; other site 743722009799 metal binding site [ion binding]; metal-binding site 743722009800 transferase, transferring glycosyl groups; Region: PLN02939 743722009801 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 743722009802 FRG domain; Region: FRG; cl07460 743722009803 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 743722009804 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 743722009805 NAD binding site [chemical binding]; other site 743722009806 catalytic Zn binding site [ion binding]; other site 743722009807 structural Zn binding site [ion binding]; other site 743722009808 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 743722009809 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 743722009810 putative hydrophobic ligand binding site [chemical binding]; other site 743722009811 Protein of unknown function DUF72; Region: DUF72; cl00777 743722009812 trehalose synthase; Region: treS_nterm; TIGR02456 743722009813 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 743722009814 active site 743722009815 catalytic site [active] 743722009816 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 743722009817 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 743722009818 active site 743722009819 catalytic site [active] 743722009820 short chain dehydrogenase; Provisional; Region: PRK06701 743722009821 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 743722009822 NAD binding site [chemical binding]; other site 743722009823 metal binding site [ion binding]; metal-binding site 743722009824 active site 743722009825 KTSC domain; Region: KTSC; pfam13619 743722009826 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722009827 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722009828 active site 743722009829 metal binding site [ion binding]; metal-binding site 743722009830 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722009831 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009832 active site 743722009833 phosphorylation site [posttranslational modification] 743722009834 intermolecular recognition site; other site 743722009835 dimerization interface [polypeptide binding]; other site 743722009836 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 743722009837 DNA binding residues [nucleotide binding] 743722009838 dimerization interface [polypeptide binding]; other site 743722009839 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722009840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009841 active site 743722009842 phosphorylation site [posttranslational modification] 743722009843 intermolecular recognition site; other site 743722009844 dimerization interface [polypeptide binding]; other site 743722009845 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 743722009846 DNA binding residues [nucleotide binding] 743722009847 dimerization interface [polypeptide binding]; other site 743722009848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 743722009849 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722009850 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 743722009851 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 743722009852 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 743722009853 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 743722009854 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 743722009855 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 743722009856 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 743722009857 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 743722009858 active site 743722009859 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 743722009860 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 743722009861 putative active site [active] 743722009862 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 743722009863 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 743722009864 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 743722009865 putative active site [active] 743722009866 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 743722009867 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 743722009868 putative ribose interaction site [chemical binding]; other site 743722009869 putative ADP binding site [chemical binding]; other site 743722009870 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 743722009871 active site 743722009872 nucleotide binding site [chemical binding]; other site 743722009873 HIGH motif; other site 743722009874 KMSKS motif; other site 743722009875 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 743722009876 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 743722009877 active site 743722009878 motif I; other site 743722009879 motif II; other site 743722009880 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 743722009881 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 743722009882 putative ADP-binding pocket [chemical binding]; other site 743722009883 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 743722009884 dimer interface [polypeptide binding]; other site 743722009885 active site 743722009886 Domain of unknown function (DUF305); Region: DUF305; cl15795 743722009887 Low affinity iron permease; Region: Iron_permease; cl12096 743722009888 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 743722009889 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722009890 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 743722009891 DNA binding residues [nucleotide binding] 743722009892 dimerization interface [polypeptide binding]; other site 743722009893 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 743722009894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009895 Family description; Region: UvrD_C_2; cl15862 743722009896 Cupin domain; Region: Cupin_2; cl09118 743722009897 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722009898 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722009899 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 743722009900 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 743722009901 putative NAD(P) binding site [chemical binding]; other site 743722009902 catalytic Zn binding site [ion binding]; other site 743722009903 structural Zn binding site [ion binding]; other site 743722009904 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 743722009905 ligand binding site [chemical binding]; other site 743722009906 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 743722009907 non-specific DNA binding site [nucleotide binding]; other site 743722009908 salt bridge; other site 743722009909 sequence-specific DNA binding site [nucleotide binding]; other site 743722009910 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722009911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722009912 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722009913 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 743722009914 Helix-turn-helix domains; Region: HTH; cl00088 743722009915 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 743722009916 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 743722009917 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 743722009918 motif II; other site 743722009919 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 743722009920 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 743722009921 FAD binding domain; Region: FAD_binding_4; pfam01565 743722009922 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 743722009923 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 743722009924 Transcriptional regulators [Transcription]; Region: FadR; COG2186 743722009925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722009926 DNA-binding site [nucleotide binding]; DNA binding site 743722009927 FCD domain; Region: FCD; cl11656 743722009928 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 743722009929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722009930 putative substrate translocation pore; other site 743722009931 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 743722009932 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 743722009933 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 743722009934 Ligand Binding Site [chemical binding]; other site 743722009935 two-component response regulator; Provisional; Region: PRK14084 743722009936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722009937 active site 743722009938 phosphorylation site [posttranslational modification] 743722009939 intermolecular recognition site; other site 743722009940 dimerization interface [polypeptide binding]; other site 743722009941 LytTr DNA-binding domain; Region: LytTR; cl04498 743722009942 Histidine kinase; Region: His_kinase; pfam06580 743722009943 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 743722009944 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 743722009945 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 743722009946 dimerization interface [polypeptide binding]; other site 743722009947 ATP binding site [chemical binding]; other site 743722009948 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 743722009949 dimerization interface [polypeptide binding]; other site 743722009950 ATP binding site [chemical binding]; other site 743722009951 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 743722009952 putative active site [active] 743722009953 catalytic triad [active] 743722009954 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722009955 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 743722009956 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 743722009957 dimer interface [polypeptide binding]; other site 743722009958 phosphorylation site [posttranslational modification] 743722009959 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722009960 ATP binding site [chemical binding]; other site 743722009961 Mg2+ binding site [ion binding]; other site 743722009962 G-X-G motif; other site 743722009963 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 743722009964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009965 Walker A/P-loop; other site 743722009966 ATP binding site [chemical binding]; other site 743722009967 Q-loop/lid; other site 743722009968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009969 ABC transporter signature motif; other site 743722009970 Walker B; other site 743722009971 D-loop; other site 743722009972 H-loop/switch region; other site 743722009973 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 743722009974 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 743722009975 active site 743722009976 metal binding site [ion binding]; metal-binding site 743722009977 DNA binding site [nucleotide binding] 743722009978 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 743722009979 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 743722009980 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 743722009981 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 743722009982 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 743722009983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722009984 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 743722009985 DNA-binding site [nucleotide binding]; DNA binding site 743722009986 RNA-binding motif; other site 743722009987 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 743722009988 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 743722009989 dimer interface [polypeptide binding]; other site 743722009990 decamer (pentamer of dimers) interface [polypeptide binding]; other site 743722009991 catalytic triad [active] 743722009992 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 743722009993 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722009994 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 743722009995 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 743722009996 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 743722009997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722009998 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 743722009999 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 743722010000 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 743722010001 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 743722010002 ATP binding site [chemical binding]; other site 743722010003 Mg++ binding site [ion binding]; other site 743722010004 motif III; other site 743722010005 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 743722010006 nucleotide binding region [chemical binding]; other site 743722010007 ATP-binding site [chemical binding]; other site 743722010008 DbpA RNA binding domain; Region: DbpA; pfam03880 743722010009 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 743722010010 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 743722010011 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 743722010012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010013 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 743722010014 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722010015 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010016 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010017 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 743722010018 gliding motility-associated protein GldC; Region: GldC; TIGR03515 743722010019 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 743722010020 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 743722010021 ATP binding site [chemical binding]; other site 743722010022 Mg++ binding site [ion binding]; other site 743722010023 motif III; other site 743722010024 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 743722010025 nucleotide binding region [chemical binding]; other site 743722010026 ATP-binding site [chemical binding]; other site 743722010027 dihydroorotase; Reviewed; Region: PRK09236 743722010028 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 743722010029 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 743722010030 active site 743722010031 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 743722010032 dimer interface [polypeptide binding]; other site 743722010033 catalytic triad [active] 743722010034 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 743722010035 putative active site [active] 743722010036 Zn binding site [ion binding]; other site 743722010037 NlpC/P60 family; Region: NLPC_P60; cl11438 743722010038 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 743722010039 active site 743722010040 dimer interface [polypeptide binding]; other site 743722010041 catalytic nucleophile [active] 743722010042 CutC family; Region: CutC; cl01218 743722010043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010044 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 743722010045 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 743722010046 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 743722010047 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722010048 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 743722010049 active site 743722010050 ADP/pyrophosphate binding site [chemical binding]; other site 743722010051 dimerization interface [polypeptide binding]; other site 743722010052 allosteric effector site; other site 743722010053 fructose-1,6-bisphosphate binding site; other site 743722010054 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 743722010055 nudix motif; other site 743722010056 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 743722010057 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722010058 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 743722010059 Lumazine binding domain; Region: Lum_binding; pfam00677 743722010060 Lumazine binding domain; Region: Lum_binding; pfam00677 743722010061 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 743722010062 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722010063 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722010064 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722010065 DNA binding site [nucleotide binding] 743722010066 domain linker motif; other site 743722010067 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722010068 dimerization interface [polypeptide binding]; other site 743722010069 ligand binding site [chemical binding]; other site 743722010070 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010071 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010072 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010073 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010074 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 743722010075 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 743722010076 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 743722010077 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 743722010078 active site 743722010079 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 743722010080 AMP-binding enzyme; Region: AMP-binding; cl15778 743722010081 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 743722010082 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 743722010083 active site 743722010084 HIGH motif; other site 743722010085 dimer interface [polypeptide binding]; other site 743722010086 KMSKS motif; other site 743722010087 amino acid transporter; Region: 2A0306; TIGR00909 743722010088 Spore germination protein; Region: Spore_permease; cl15802 743722010089 Spore germination protein; Region: Spore_permease; cl15802 743722010090 K+ potassium transporter; Region: K_trans; cl15781 743722010091 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 743722010092 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 743722010093 Peptidase family M23; Region: Peptidase_M23; pfam01551 743722010094 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 743722010095 catalytic triad [active] 743722010096 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 743722010097 TPP-binding site [chemical binding]; other site 743722010098 dimer interface [polypeptide binding]; other site 743722010099 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 743722010100 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 743722010101 PYR/PP interface [polypeptide binding]; other site 743722010102 dimer interface [polypeptide binding]; other site 743722010103 TPP binding site [chemical binding]; other site 743722010104 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 743722010105 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 743722010106 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722010107 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 743722010108 DNA binding residues [nucleotide binding] 743722010109 acetylornithine aminotransferase; Provisional; Region: PRK02627 743722010110 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 743722010111 inhibitor-cofactor binding pocket; inhibition site 743722010112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722010113 catalytic residue [active] 743722010114 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 743722010115 catalytic residues [active] 743722010116 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 743722010117 active site 743722010118 catalytic site [active] 743722010119 substrate binding site [chemical binding]; other site 743722010120 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 743722010121 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 743722010122 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 743722010123 generic binding surface II; other site 743722010124 generic binding surface I; other site 743722010125 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722010126 Two component regulator propeller; Region: Reg_prop; pfam07494 743722010127 Two component regulator propeller; Region: Reg_prop; pfam07494 743722010128 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722010129 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 743722010130 dimer interface [polypeptide binding]; other site 743722010131 phosphorylation site [posttranslational modification] 743722010132 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010133 ATP binding site [chemical binding]; other site 743722010134 Mg2+ binding site [ion binding]; other site 743722010135 G-X-G motif; other site 743722010136 Response regulator receiver domain; Region: Response_reg; pfam00072 743722010137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010138 active site 743722010139 phosphorylation site [posttranslational modification] 743722010140 intermolecular recognition site; other site 743722010141 dimerization interface [polypeptide binding]; other site 743722010142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722010143 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 743722010144 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 743722010145 PA14 domain; Region: PA14; cl08459 743722010146 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 743722010147 putative active site [active] 743722010148 putative catalytic site [active] 743722010149 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010150 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010151 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 743722010152 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722010153 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722010154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010155 Family of unknown function (DUF490); Region: DUF490; pfam04357 743722010156 Family of unknown function (DUF490); Region: DUF490; pfam04357 743722010157 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 743722010158 Surface antigen; Region: Bac_surface_Ag; cl03097 743722010159 malate dehydrogenase; Reviewed; Region: PRK06223 743722010160 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 743722010161 dimer interface [polypeptide binding]; other site 743722010162 NAD(P) binding site [chemical binding]; other site 743722010163 tetramer (dimer of dimers) interface [polypeptide binding]; other site 743722010164 substrate binding site [chemical binding]; other site 743722010165 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 743722010166 catalytic motif [active] 743722010167 Catalytic residue [active] 743722010168 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722010169 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 743722010170 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 743722010171 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 743722010172 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 743722010173 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 743722010174 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 743722010175 putative catalytic site [active] 743722010176 putative metal binding site [ion binding]; other site 743722010177 putative phosphate binding site [ion binding]; other site 743722010178 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010179 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 743722010180 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 743722010181 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 743722010182 EamA-like transporter family; Region: EamA; cl01037 743722010183 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 743722010184 EamA-like transporter family; Region: EamA; cl01037 743722010185 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 743722010186 putative active site [active] 743722010187 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 743722010188 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722010189 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 743722010190 active site 743722010191 catalytic tetrad [active] 743722010192 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 743722010193 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 743722010194 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 743722010195 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 743722010196 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 743722010197 Protein of unknown function (DUF962); Region: DUF962; cl01879 743722010198 phosphodiesterase; Provisional; Region: PRK12704 743722010199 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 743722010200 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 743722010201 Cell division protein ZapA; Region: ZapA; cl01146 743722010202 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 743722010203 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 743722010204 putative tRNA-binding site [nucleotide binding]; other site 743722010205 B3/4 domain; Region: B3_4; cl11458 743722010206 tRNA synthetase B5 domain; Region: B5; cl08394 743722010207 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 743722010208 dimer interface [polypeptide binding]; other site 743722010209 motif 1; other site 743722010210 motif 3; other site 743722010211 motif 2; other site 743722010212 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 743722010213 hypothetical protein; Reviewed; Region: PRK00024 743722010214 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 743722010215 MPN+ (JAMM) motif; other site 743722010216 Zinc-binding site [ion binding]; other site 743722010217 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722010218 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 743722010219 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cd10981 743722010220 Zn binding site [ion binding]; other site 743722010221 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 743722010222 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 743722010223 N-terminal plug; other site 743722010224 ligand-binding site [chemical binding]; other site 743722010225 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 743722010226 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 743722010227 Metal-binding active site; metal-binding site 743722010228 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 743722010229 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 743722010230 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 743722010231 N- and C-terminal domain interface [polypeptide binding]; other site 743722010232 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 743722010233 active site 743722010234 MgATP binding site [chemical binding]; other site 743722010235 catalytic site [active] 743722010236 metal binding site [ion binding]; metal-binding site 743722010237 carbohydrate binding site [chemical binding]; other site 743722010238 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722010239 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722010240 DNA binding site [nucleotide binding] 743722010241 domain linker motif; other site 743722010242 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722010243 dimerization interface [polypeptide binding]; other site 743722010244 ligand binding site [chemical binding]; other site 743722010245 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722010246 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 743722010247 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 743722010248 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 743722010249 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 743722010250 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 743722010251 MgtE intracellular N domain; Region: MgtE_N; cl15244 743722010252 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 743722010253 Divalent cation transporter; Region: MgtE; cl00786 743722010254 Sulfate transporter family; Region: Sulfate_transp; cl15842 743722010255 Sulfate transporter family; Region: Sulfate_transp; cl15842 743722010256 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 743722010257 active site clefts [active] 743722010258 zinc binding site [ion binding]; other site 743722010259 dimer interface [polypeptide binding]; other site 743722010260 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 743722010261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 743722010262 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 743722010263 dimerization interface [polypeptide binding]; other site 743722010264 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 743722010265 dimer interface [polypeptide binding]; other site 743722010266 phosphorylation site [posttranslational modification] 743722010267 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010268 ATP binding site [chemical binding]; other site 743722010269 Mg2+ binding site [ion binding]; other site 743722010270 G-X-G motif; other site 743722010271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722010272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010273 active site 743722010274 phosphorylation site [posttranslational modification] 743722010275 intermolecular recognition site; other site 743722010276 dimerization interface [polypeptide binding]; other site 743722010277 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 743722010278 DNA binding site [nucleotide binding] 743722010279 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 743722010280 elongation factor G; Reviewed; Region: PRK12739 743722010281 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 743722010282 G1 box; other site 743722010283 putative GEF interaction site [polypeptide binding]; other site 743722010284 GTP/Mg2+ binding site [chemical binding]; other site 743722010285 Switch I region; other site 743722010286 G2 box; other site 743722010287 G3 box; other site 743722010288 Switch II region; other site 743722010289 G4 box; other site 743722010290 G5 box; other site 743722010291 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 743722010292 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 743722010293 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 743722010294 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 743722010295 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 743722010296 S17 interaction site [polypeptide binding]; other site 743722010297 S8 interaction site; other site 743722010298 16S rRNA interaction site [nucleotide binding]; other site 743722010299 streptomycin interaction site [chemical binding]; other site 743722010300 23S rRNA interaction site [nucleotide binding]; other site 743722010301 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 743722010302 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 743722010303 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722010304 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 743722010305 phosphoribosylaminoimidazole synthetase; Region: purM; TIGR00878 743722010306 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 743722010307 dimerization interface [polypeptide binding]; other site 743722010308 ATP binding site [chemical binding]; other site 743722010309 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 743722010310 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 743722010311 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 743722010312 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 743722010313 Cation efflux family; Region: Cation_efflux; cl00316 743722010314 aspartate aminotransferase; Provisional; Region: PRK05764 743722010315 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 743722010316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722010317 homodimer interface [polypeptide binding]; other site 743722010318 catalytic residue [active] 743722010319 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722010320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010321 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 743722010322 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722010323 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722010324 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722010325 FtsX-like permease family; Region: FtsX; cl15850 743722010326 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 743722010327 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 743722010328 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 743722010329 substrate binding site; other site 743722010330 dimer interface; other site 743722010331 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 743722010332 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 743722010333 active site 743722010334 intersubunit interface [polypeptide binding]; other site 743722010335 zinc binding site [ion binding]; other site 743722010336 Na+ binding site [ion binding]; other site 743722010337 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 743722010338 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 743722010339 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 743722010340 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 743722010341 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722010342 catalytic residue [active] 743722010343 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 743722010344 This PGM-like (phosphoglucomutase-like) domain is located C-terminal to a mannose-1-phosphate guanyltransferase domain in a protein of unknown function that is found in both prokaryotes and eukaryotes. This domain belongs to the alpha-D-phosphohexomutase...; Region: PGM_like4; cd05803 743722010345 active site 743722010346 substrate binding site [chemical binding]; other site 743722010347 metal binding site [ion binding]; metal-binding site 743722010348 PAP2_like_4 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_4; cd03395 743722010349 active site 743722010350 ZIP Zinc transporter; Region: Zip; pfam02535 743722010351 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722010352 Helix-turn-helix domains; Region: HTH; cl00088 743722010353 Helix-turn-helix domains; Region: HTH; cl00088 743722010354 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 743722010355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722010356 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 743722010357 CoA-binding site [chemical binding]; other site 743722010358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 743722010359 Preprotein translocase subunit; Region: YajC; cl00806 743722010360 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 743722010361 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 743722010362 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 743722010363 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 743722010364 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 743722010365 NAD binding site [chemical binding]; other site 743722010366 Phe binding site; other site 743722010367 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722010368 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722010369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722010370 Walker A/P-loop; other site 743722010371 ATP binding site [chemical binding]; other site 743722010372 Q-loop/lid; other site 743722010373 ABC transporter signature motif; other site 743722010374 Walker B; other site 743722010375 D-loop; other site 743722010376 H-loop/switch region; other site 743722010377 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 743722010378 ligand binding site [chemical binding]; other site 743722010379 active site 743722010380 UGI interface [polypeptide binding]; other site 743722010381 catalytic site [active] 743722010382 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 743722010383 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 743722010384 putative DNA binding site [nucleotide binding]; other site 743722010385 putative Zn2+ binding site [ion binding]; other site 743722010386 Helix-turn-helix domains; Region: HTH; cl00088 743722010387 Fe-S metabolism associated domain; Region: SufE; cl00951 743722010388 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 743722010389 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 743722010390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 743722010391 catalytic residue [active] 743722010392 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 743722010393 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 743722010394 FeS assembly ATPase SufC; Region: sufC; TIGR01978 743722010395 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 743722010396 Walker A/P-loop; other site 743722010397 ATP binding site [chemical binding]; other site 743722010398 Q-loop/lid; other site 743722010399 ABC transporter signature motif; other site 743722010400 Walker B; other site 743722010401 D-loop; other site 743722010402 H-loop/switch region; other site 743722010403 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 743722010404 putative ABC transporter; Region: ycf24; CHL00085 743722010405 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 743722010406 active site 743722010407 dimer interface [polypeptide binding]; other site 743722010408 transcription termination factor Rho; Provisional; Region: PRK12678 743722010409 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 743722010410 transcription termination factor Rho; Provisional; Region: PRK12608 743722010411 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 743722010412 RNA binding site [nucleotide binding]; other site 743722010413 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 743722010414 multimer interface [polypeptide binding]; other site 743722010415 Walker A motif; other site 743722010416 ATP binding site [chemical binding]; other site 743722010417 Walker B motif; other site 743722010418 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 743722010419 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 743722010420 catalytic center binding site [active] 743722010421 ATP binding site [chemical binding]; other site 743722010422 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 743722010423 tandem repeat interface [polypeptide binding]; other site 743722010424 oligomer interface [polypeptide binding]; other site 743722010425 active site residues [active] 743722010426 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 743722010427 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 743722010428 tandem repeat interface [polypeptide binding]; other site 743722010429 oligomer interface [polypeptide binding]; other site 743722010430 active site residues [active] 743722010431 hypothetical protein; Provisional; Region: PRK08609 743722010432 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 743722010433 metal binding triad [ion binding]; metal-binding site 743722010434 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 743722010435 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 743722010436 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 743722010437 putative active site [active] 743722010438 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 743722010439 catalytic core [active] 743722010440 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 743722010441 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 743722010442 active site 743722010443 catalytic residues [active] 743722010444 Mechanosensitive ion channel; Region: MS_channel; pfam00924 743722010445 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 743722010446 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 743722010447 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 743722010448 putative active site [active] 743722010449 catalytic site [active] 743722010450 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 743722010451 putative active site [active] 743722010452 catalytic site [active] 743722010453 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 743722010454 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010455 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722010456 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 743722010457 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 743722010458 Zn binding site [ion binding]; other site 743722010459 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 743722010460 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 743722010461 active site 743722010462 Zn binding site [ion binding]; other site 743722010463 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722010464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722010465 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 743722010466 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 743722010467 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 743722010468 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 743722010469 substrate binding pocket [chemical binding]; other site 743722010470 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722010471 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722010472 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722010473 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 743722010474 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 743722010475 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 743722010476 dimer interface [polypeptide binding]; other site 743722010477 Response regulator receiver domain; Region: Response_reg; pfam00072 743722010478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010479 active site 743722010480 phosphorylation site [posttranslational modification] 743722010481 intermolecular recognition site; other site 743722010482 dimerization interface [polypeptide binding]; other site 743722010483 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722010484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010485 active site 743722010486 phosphorylation site [posttranslational modification] 743722010487 intermolecular recognition site; other site 743722010488 dimerization interface [polypeptide binding]; other site 743722010489 LytTr DNA-binding domain; Region: LytTR; cl04498 743722010490 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722010491 Histidine kinase; Region: His_kinase; pfam06580 743722010492 Protein of unknown function (DUF423); Region: DUF423; cl01008 743722010493 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 743722010494 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 743722010495 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 743722010496 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 743722010497 motif II; other site 743722010498 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 743722010499 Uncharacterized conserved protein [Function unknown]; Region: COG2898 743722010500 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 743722010501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722010502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010503 active site 743722010504 phosphorylation site [posttranslational modification] 743722010505 intermolecular recognition site; other site 743722010506 dimerization interface [polypeptide binding]; other site 743722010507 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 743722010508 DNA binding site [nucleotide binding] 743722010509 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 743722010510 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010511 ATP binding site [chemical binding]; other site 743722010512 Mg2+ binding site [ion binding]; other site 743722010513 G-X-G motif; other site 743722010514 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722010515 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 743722010516 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722010517 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 743722010518 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 743722010519 N-acetyltransferase; Region: Acetyltransf_2; cl00949 743722010520 Predicted transcriptional regulator [Transcription]; Region: COG2345 743722010521 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 743722010522 active site 743722010523 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 743722010524 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 743722010525 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 743722010526 FeS/SAM binding site; other site 743722010527 OsmC-like protein; Region: OsmC; cl00767 743722010528 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 743722010529 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 743722010530 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 743722010531 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722010532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010533 active site 743722010534 phosphorylation site [posttranslational modification] 743722010535 intermolecular recognition site; other site 743722010536 dimerization interface [polypeptide binding]; other site 743722010537 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 743722010538 DNA binding site [nucleotide binding] 743722010539 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 743722010540 dimer interface [polypeptide binding]; other site 743722010541 phosphorylation site [posttranslational modification] 743722010542 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010543 ATP binding site [chemical binding]; other site 743722010544 Mg2+ binding site [ion binding]; other site 743722010545 G-X-G motif; other site 743722010546 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 743722010547 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010548 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722010549 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 743722010550 putative active site [active] 743722010551 Zn binding site [ion binding]; other site 743722010552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 743722010553 Helix-turn-helix domains; Region: HTH; cl00088 743722010554 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 743722010555 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 743722010556 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 743722010557 dimer interface [polypeptide binding]; other site 743722010558 active site 743722010559 Helix-turn-helix domains; Region: HTH; cl00088 743722010560 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722010561 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 743722010562 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 743722010563 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 743722010564 ABC-2 type transporter; Region: ABC2_membrane; cl11417 743722010565 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 743722010566 ABC-2 type transporter; Region: ABC2_membrane; cl11417 743722010567 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 743722010568 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 743722010569 Walker A/P-loop; other site 743722010570 ATP binding site [chemical binding]; other site 743722010571 Q-loop/lid; other site 743722010572 ABC transporter signature motif; other site 743722010573 Walker B; other site 743722010574 D-loop; other site 743722010575 H-loop/switch region; other site 743722010576 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 743722010577 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 743722010578 Walker A/P-loop; other site 743722010579 ATP binding site [chemical binding]; other site 743722010580 Q-loop/lid; other site 743722010581 ABC transporter signature motif; other site 743722010582 Walker B; other site 743722010583 D-loop; other site 743722010584 H-loop/switch region; other site 743722010585 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 743722010586 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 743722010587 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 743722010588 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722010589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722010590 Helix-turn-helix domains; Region: HTH; cl00088 743722010591 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722010592 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 743722010593 Walker A motif; other site 743722010594 ATP binding site [chemical binding]; other site 743722010595 Walker B motif; other site 743722010596 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 743722010597 Integrase core domain; Region: rve; cl01316 743722010598 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 743722010599 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 743722010600 DNA-binding site [nucleotide binding]; DNA binding site 743722010601 RNA-binding motif; other site 743722010602 ATP cone domain; Region: ATP-cone; pfam03477 743722010603 Restriction endonuclease; Region: Mrr_cat; cl00516 743722010604 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 743722010605 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 743722010606 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 743722010607 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 743722010608 putative active site [active] 743722010609 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722010610 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722010611 Walker A/P-loop; other site 743722010612 ATP binding site [chemical binding]; other site 743722010613 Q-loop/lid; other site 743722010614 ABC transporter signature motif; other site 743722010615 Walker B; other site 743722010616 D-loop; other site 743722010617 H-loop/switch region; other site 743722010618 OpgC protein; Region: OpgC_C; cl00792 743722010619 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722010620 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 743722010621 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 743722010622 active site 743722010623 nucleophile elbow; other site 743722010624 DinB superfamily; Region: DinB_2; pfam12867 743722010625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722010626 AAA domain; Region: AAA_28; pfam13521 743722010627 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 743722010628 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 743722010629 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 743722010630 Active_site [active] 743722010631 Protein of unknown function (DUF763); Region: DUF763; cl00620 743722010632 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722010633 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 743722010634 dimer interface [polypeptide binding]; other site 743722010635 putative metal binding site [ion binding]; other site 743722010636 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 743722010637 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 743722010638 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 743722010639 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 743722010640 FeS/SAM binding site; other site 743722010641 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722010642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010643 NAD(P) binding site [chemical binding]; other site 743722010644 active site 743722010645 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 743722010646 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 743722010647 homodimer interface [polypeptide binding]; other site 743722010648 putative substrate binding pocket [chemical binding]; other site 743722010649 diiron center [ion binding]; other site 743722010650 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722010651 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722010652 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722010653 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 743722010654 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 743722010655 active site 743722010656 N-formylglutamate amidohydrolase; Region: FGase; cl01522 743722010657 conserved hypothetical protein; Region: QEGLA; TIGR02421 743722010658 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 743722010659 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 743722010660 glutathione synthetase; Provisional; Region: PRK12458 743722010661 ATP-grasp domain; Region: ATP-grasp_4; cl03087 743722010662 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 743722010663 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 743722010664 FAD binding pocket [chemical binding]; other site 743722010665 conserved FAD binding motif [chemical binding]; other site 743722010666 phosphate binding motif [ion binding]; other site 743722010667 beta-alpha-beta structure motif; other site 743722010668 NAD binding pocket [chemical binding]; other site 743722010669 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 743722010670 catalytic loop [active] 743722010671 iron binding site [ion binding]; other site 743722010672 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 743722010673 binding surface 743722010674 TPR motif; other site 743722010675 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 743722010676 Histidine kinase; Region: HisKA_3; pfam07730 743722010677 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010678 ATP binding site [chemical binding]; other site 743722010679 Mg2+ binding site [ion binding]; other site 743722010680 G-X-G motif; other site 743722010681 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722010682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010683 active site 743722010684 phosphorylation site [posttranslational modification] 743722010685 intermolecular recognition site; other site 743722010686 dimerization interface [polypeptide binding]; other site 743722010687 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 743722010688 DNA binding residues [nucleotide binding] 743722010689 dimerization interface [polypeptide binding]; other site 743722010690 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 743722010691 Transglycosylase; Region: Transgly; cl07896 743722010692 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722010693 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 743722010694 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 743722010695 MG2 domain; Region: A2M_N; pfam01835 743722010696 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 743722010697 Alpha-2-macroglobulin family; Region: A2M; pfam00207 743722010698 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 743722010699 surface patch; other site 743722010700 thioester region; other site 743722010701 specificity defining residues; other site 743722010702 DoxX; Region: DoxX; cl00976 743722010703 cysteine synthase B; Region: cysM; TIGR01138 743722010704 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 743722010705 dimer interface [polypeptide binding]; other site 743722010706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722010707 catalytic residue [active] 743722010708 serine O-acetyltransferase; Region: cysE; TIGR01172 743722010709 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 743722010710 trimer interface [polypeptide binding]; other site 743722010711 active site 743722010712 substrate binding site [chemical binding]; other site 743722010713 CoA binding site [chemical binding]; other site 743722010714 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 743722010715 putative active site [active] 743722010716 putative FMN binding site [chemical binding]; other site 743722010717 putative substrate binding site [chemical binding]; other site 743722010718 putative catalytic residue [active] 743722010719 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 743722010720 dimerization interface [polypeptide binding]; other site 743722010721 putative DNA binding site [nucleotide binding]; other site 743722010722 putative Zn2+ binding site [ion binding]; other site 743722010723 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 743722010724 active site 743722010725 dinuclear metal binding site [ion binding]; other site 743722010726 dimerization interface [polypeptide binding]; other site 743722010727 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 743722010728 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 743722010729 trmE is a tRNA modification GTPase; Region: trmE; cd04164 743722010730 G1 box; other site 743722010731 GTP/Mg2+ binding site [chemical binding]; other site 743722010732 Switch I region; other site 743722010733 G2 box; other site 743722010734 Switch II region; other site 743722010735 G3 box; other site 743722010736 G4 box; other site 743722010737 G5 box; other site 743722010738 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 743722010739 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 743722010740 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 743722010741 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722010742 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 743722010743 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 743722010744 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722010745 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 743722010746 NodB motif; other site 743722010747 putative active site [active] 743722010748 putative catalytic site [active] 743722010749 putative Zn binding site [ion binding]; other site 743722010750 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 743722010751 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010752 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722010753 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 743722010754 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 743722010755 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722010756 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 743722010757 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 743722010758 tetramer interface [polypeptide binding]; other site 743722010759 active site 743722010760 Mg2+/Mn2+ binding site [ion binding]; other site 743722010761 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 743722010762 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 743722010763 oxalacetate binding site [chemical binding]; other site 743722010764 citrylCoA binding site [chemical binding]; other site 743722010765 coenzyme A binding site [chemical binding]; other site 743722010766 catalytic triad [active] 743722010767 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 743722010768 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722010769 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 743722010770 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 743722010771 putative substrate translocation pore; other site 743722010772 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 743722010773 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 743722010774 binding surface 743722010775 TPR motif; other site 743722010776 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 743722010777 binding surface 743722010778 TPR motif; other site 743722010779 TPR repeat; Region: TPR_11; pfam13414 743722010780 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 743722010781 binding surface 743722010782 TPR motif; other site 743722010783 Cupin domain; Region: Cupin_2; cl09118 743722010784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722010785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722010786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722010787 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 743722010788 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 743722010789 putative NAD(P) binding site [chemical binding]; other site 743722010790 dimer interface [polypeptide binding]; other site 743722010791 Cupin domain; Region: Cupin_2; cl09118 743722010792 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722010793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722010794 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 743722010795 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 743722010796 substrate binding site [chemical binding]; other site 743722010797 active site 743722010798 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 743722010799 metal binding site [ion binding]; metal-binding site 743722010800 ligand binding site [chemical binding]; other site 743722010801 Nitronate monooxygenase; Region: NMO; pfam03060 743722010802 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 743722010803 FMN binding site [chemical binding]; other site 743722010804 substrate binding site [chemical binding]; other site 743722010805 putative catalytic residue [active] 743722010806 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 743722010807 ligand binding site [chemical binding]; other site 743722010808 flexible hinge region; other site 743722010809 Helix-turn-helix domains; Region: HTH; cl00088 743722010810 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722010811 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722010812 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 743722010813 Walker A motif; other site 743722010814 ATP binding site [chemical binding]; other site 743722010815 Walker B motif; other site 743722010816 Helix-turn-helix domains; Region: HTH; cl00088 743722010817 Integrase core domain; Region: rve; cl01316 743722010818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 743722010819 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 743722010820 Helix-turn-helix domains; Region: HTH; cl00088 743722010821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722010822 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 743722010823 DoxX; Region: DoxX; cl00976 743722010824 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 743722010825 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 743722010826 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722010827 short chain dehydrogenase; Provisional; Region: PRK06914 743722010828 NADP binding site [chemical binding]; other site 743722010829 active site 743722010830 steroid binding site; other site 743722010831 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722010832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722010833 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 743722010834 classical (c) SDRs; Region: SDR_c; cd05233 743722010835 NAD(P) binding site [chemical binding]; other site 743722010836 active site 743722010837 Helix-turn-helix domains; Region: HTH; cl00088 743722010838 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 743722010839 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 743722010840 NADP binding site [chemical binding]; other site 743722010841 Helix-turn-helix domains; Region: HTH; cl00088 743722010842 NIPSNAP; Region: NIPSNAP; pfam07978 743722010843 NIPSNAP; Region: NIPSNAP; pfam07978 743722010844 Helix-turn-helix domains; Region: HTH; cl00088 743722010845 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 743722010846 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 743722010847 putative NAD(P) binding site [chemical binding]; other site 743722010848 Flavin Reductases; Region: FlaRed; cl00801 743722010849 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 743722010850 ligand binding site [chemical binding]; other site 743722010851 short chain dehydrogenase; Provisional; Region: PRK06914 743722010852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010853 NAD(P) binding site [chemical binding]; other site 743722010854 active site 743722010855 hypothetical protein; Provisional; Region: PRK07588 743722010856 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722010857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010858 Cupin domain; Region: Cupin_2; cl09118 743722010859 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722010860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722010861 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722010862 Histidine kinase; Region: HisKA_3; pfam07730 743722010863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010864 ATP binding site [chemical binding]; other site 743722010865 Mg2+ binding site [ion binding]; other site 743722010866 G-X-G motif; other site 743722010867 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722010868 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 743722010869 DNA binding residues [nucleotide binding] 743722010870 dimerization interface [polypeptide binding]; other site 743722010871 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 743722010872 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 743722010873 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 743722010874 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010875 ATP binding site [chemical binding]; other site 743722010876 Mg2+ binding site [ion binding]; other site 743722010877 G-X-G motif; other site 743722010878 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_6; cd01844 743722010879 active site 743722010880 catalytic triad [active] 743722010881 oxyanion hole [active] 743722010882 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722010883 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722010884 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 743722010885 ligand binding site [chemical binding]; other site 743722010886 flexible hinge region; other site 743722010887 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 743722010888 folate binding site [chemical binding]; other site 743722010889 NADP+ binding site [chemical binding]; other site 743722010890 Sulfatase; Region: Sulfatase; cl10460 743722010891 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722010892 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722010893 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 743722010894 ligand binding site [chemical binding]; other site 743722010895 flexible hinge region; other site 743722010896 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 743722010897 NAD(P) binding site [chemical binding]; other site 743722010898 active site 743722010899 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 743722010900 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722010901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722010902 active site 743722010903 phosphorylation site [posttranslational modification] 743722010904 intermolecular recognition site; other site 743722010905 dimerization interface [polypeptide binding]; other site 743722010906 LytTr DNA-binding domain; Region: LytTR; cl04498 743722010907 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722010908 Histidine kinase; Region: His_kinase; pfam06580 743722010909 CAAX protease self-immunity; Region: Abi; cl00558 743722010910 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 743722010911 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 743722010912 ligand binding site [chemical binding]; other site 743722010913 flexible hinge region; other site 743722010914 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 743722010915 homotrimer interaction site [polypeptide binding]; other site 743722010916 putative active site [active] 743722010917 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722010918 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 743722010919 ligand binding site [chemical binding]; other site 743722010920 flexible hinge region; other site 743722010921 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722010922 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722010923 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 743722010924 DNA binding residues [nucleotide binding] 743722010925 FecR protein; Region: FecR; pfam04773 743722010926 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722010927 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010928 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010929 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 743722010930 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 743722010931 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010932 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010933 Predicted permeases [General function prediction only]; Region: RarD; COG2962 743722010934 EamA-like transporter family; Region: EamA; cl01037 743722010935 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722010936 Sulfatase; Region: Sulfatase; cl10460 743722010937 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722010938 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722010939 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 743722010940 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 743722010941 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722010942 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010943 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010944 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 743722010945 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 743722010946 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 743722010947 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 743722010948 putative substrate translocation pore; other site 743722010949 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 743722010950 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 743722010951 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722010952 DNA-binding site [nucleotide binding]; DNA binding site 743722010953 UTRA domain; Region: UTRA; cl01230 743722010954 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722010955 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722010956 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722010957 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010958 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010959 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010960 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 743722010961 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 743722010962 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 743722010963 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 743722010964 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 743722010965 metal-binding site [ion binding] 743722010966 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722010967 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722010968 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 743722010969 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 743722010970 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 743722010971 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722010972 K+-transporting ATPase, c chain; Region: KdpC; cl00944 743722010973 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 743722010974 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 743722010975 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 743722010976 Ligand Binding Site [chemical binding]; other site 743722010977 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 743722010978 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 743722010979 dimerization interface [polypeptide binding]; other site 743722010980 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 743722010981 dimer interface [polypeptide binding]; other site 743722010982 phosphorylation site [posttranslational modification] 743722010983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722010984 ATP binding site [chemical binding]; other site 743722010985 Mg2+ binding site [ion binding]; other site 743722010986 G-X-G motif; other site 743722010987 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 743722010988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722010989 NAD(P) binding site [chemical binding]; other site 743722010990 active site 743722010991 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722010992 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722010993 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 743722010994 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 743722010995 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010996 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722010997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722010998 DNA-binding site [nucleotide binding]; DNA binding site 743722010999 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 743722011000 putative dimerization interface [polypeptide binding]; other site 743722011001 putative ligand binding site [chemical binding]; other site 743722011002 putative transporter; Provisional; Region: PRK10484 743722011003 Sodium:solute symporter family; Region: SSF; cl00456 743722011004 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011006 Protein of unknown function, DUF486; Region: DUF486; cl01236 743722011007 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 743722011008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011009 active site 743722011010 phosphorylation site [posttranslational modification] 743722011011 intermolecular recognition site; other site 743722011012 dimerization interface [polypeptide binding]; other site 743722011013 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 743722011014 ATP binding site [chemical binding]; other site 743722011015 Walker B motif; other site 743722011016 arginine finger; other site 743722011017 Helix-turn-helix domains; Region: HTH; cl00088 743722011018 cyclase homology domain; Region: CHD; cd07302 743722011019 nucleotidyl binding site; other site 743722011020 metal binding site [ion binding]; metal-binding site 743722011021 dimer interface [polypeptide binding]; other site 743722011022 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 743722011023 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 743722011024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011025 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 743722011026 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 743722011027 DNA binding site [nucleotide binding] 743722011028 active site 743722011029 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 743722011030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011031 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 743722011032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011033 Family description; Region: UvrD_C_2; cl15862 743722011034 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 743722011035 putative active site [active] 743722011036 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 743722011037 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 743722011038 active site 743722011039 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 743722011040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011041 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 743722011042 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 743722011043 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 743722011044 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 743722011045 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 743722011046 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 743722011047 putative active site [active] 743722011048 Staphylococcal nuclease homologues; Region: SNc; smart00318 743722011049 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 743722011050 Catalytic site; other site 743722011051 Protein of unknown function (DUF419); Region: DUF419; cl15265 743722011052 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 743722011053 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 743722011054 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 743722011055 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 743722011056 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 743722011057 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722011058 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722011059 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 743722011060 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 743722011061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 743722011062 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 743722011063 Domain of unknown function (DUF303); Region: DUF303; pfam03629 743722011064 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 743722011065 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 743722011066 putative substrate translocation pore; other site 743722011067 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722011068 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722011069 Histidine kinase; Region: HisKA_3; pfam07730 743722011070 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722011071 ATP binding site [chemical binding]; other site 743722011072 Mg2+ binding site [ion binding]; other site 743722011073 G-X-G motif; other site 743722011074 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722011075 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011076 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722011077 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011078 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011079 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 743722011080 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722011081 FecR protein; Region: FecR; pfam04773 743722011082 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722011083 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011084 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 743722011085 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 743722011086 BNR repeat-like domain; Region: BNR_2; pfam13088 743722011087 catalytic site [active] 743722011088 Asp-box motif; other site 743722011089 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 743722011090 MgtE intracellular N domain; Region: MgtE_N; cl15244 743722011091 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 743722011092 Divalent cation transporter; Region: MgtE; cl00786 743722011093 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 743722011094 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 743722011095 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 743722011096 Cytochrome c; Region: Cytochrom_C; cl11414 743722011097 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 743722011098 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 743722011099 Cu(I) binding site [ion binding]; other site 743722011100 FixH; Region: FixH; cl01254 743722011101 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 743722011102 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 743722011103 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722011104 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722011105 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 743722011106 active site 743722011107 catalytic triad [active] 743722011108 oxyanion hole [active] 743722011109 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 743722011110 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 743722011111 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 743722011112 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722011113 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722011114 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011115 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011116 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722011117 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 743722011118 FecR protein; Region: FecR; pfam04773 743722011119 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722011120 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011121 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 743722011122 DNA binding residues [nucleotide binding] 743722011123 Domain of unknown function (DUF202); Region: DUF202; cl09954 743722011124 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 743722011125 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722011126 FtsX-like permease family; Region: FtsX; cl15850 743722011127 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722011128 FtsX-like permease family; Region: FtsX; cl15850 743722011129 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722011130 Sulfatase; Region: Sulfatase; cl10460 743722011131 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722011132 YCII-related domain; Region: YCII; cl00999 743722011133 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 743722011134 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011135 Sulfatase; Region: Sulfatase; cl10460 743722011136 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722011137 EamA-like transporter family; Region: EamA; cl01037 743722011138 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 743722011139 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722011140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722011141 Helix-turn-helix domains; Region: HTH; cl00088 743722011142 Carboxylesterase family; Region: COesterase; pfam00135 743722011143 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 743722011144 substrate binding pocket [chemical binding]; other site 743722011145 catalytic triad [active] 743722011146 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 743722011147 non-specific DNA binding site [nucleotide binding]; other site 743722011148 salt bridge; other site 743722011149 sequence-specific DNA binding site [nucleotide binding]; other site 743722011150 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 743722011151 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 743722011152 putative metal binding site [ion binding]; other site 743722011153 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 743722011154 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011155 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011156 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722011157 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011158 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011159 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 743722011160 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 743722011161 FecR protein; Region: FecR; pfam04773 743722011162 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722011163 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722011164 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011165 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 743722011166 DNA binding residues [nucleotide binding] 743722011167 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 743722011168 active site triad [active] 743722011169 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 743722011170 homotrimer interaction site [polypeptide binding]; other site 743722011171 putative active site [active] 743722011172 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722011173 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 743722011174 ligand binding site [chemical binding]; other site 743722011175 flexible hinge region; other site 743722011176 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011178 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722011179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011180 NAD(P) binding site [chemical binding]; other site 743722011181 active site 743722011182 H+ Antiporter protein; Region: 2A0121; TIGR00900 743722011183 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 743722011184 putative substrate translocation pore; other site 743722011185 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011187 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 743722011188 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 743722011189 FAD binding pocket [chemical binding]; other site 743722011190 conserved FAD binding motif [chemical binding]; other site 743722011191 phosphate binding motif [ion binding]; other site 743722011192 beta-alpha-beta structure motif; other site 743722011193 NAD binding pocket [chemical binding]; other site 743722011194 Transcriptional regulator [Transcription]; Region: LysR; COG0583 743722011195 Helix-turn-helix domains; Region: HTH; cl00088 743722011196 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 743722011197 dimerization interface [polypeptide binding]; other site 743722011198 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 743722011199 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722011200 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 743722011201 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 743722011202 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 743722011203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011204 NAD(P) binding site [chemical binding]; other site 743722011205 active site 743722011206 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722011207 Helix-turn-helix domains; Region: HTH; cl00088 743722011208 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 743722011209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011210 Walker A/P-loop; other site 743722011211 ATP binding site [chemical binding]; other site 743722011212 Q-loop/lid; other site 743722011213 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 743722011214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011215 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 743722011216 Walker A/P-loop; other site 743722011217 ATP binding site [chemical binding]; other site 743722011218 Q-loop/lid; other site 743722011219 ABC transporter signature motif; other site 743722011220 Walker B; other site 743722011221 D-loop; other site 743722011222 H-loop/switch region; other site 743722011223 FtsX-like permease family; Region: FtsX; cl15850 743722011224 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 743722011225 active site 743722011226 metal binding site [ion binding]; metal-binding site 743722011227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722011228 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 743722011229 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722011230 FtsX-like permease family; Region: FtsX; cl15850 743722011231 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722011232 FtsX-like permease family; Region: FtsX; cl15850 743722011233 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722011234 Helix-turn-helix domains; Region: HTH; cl00088 743722011235 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 743722011236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011237 NAD(P) binding site [chemical binding]; other site 743722011238 active site 743722011239 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 743722011240 short chain dehydrogenase; Provisional; Region: PRK09291 743722011241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011242 NAD(P) binding site [chemical binding]; other site 743722011243 active site 743722011244 Domain of unknown function (DUF336); Region: DUF336; cl01249 743722011245 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011247 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 743722011248 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 743722011249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011250 Uncharacterized conserved protein [Function unknown]; Region: COG3268 743722011251 NAD(P) binding site [chemical binding]; other site 743722011252 active site 743722011253 short chain dehydrogenase; Provisional; Region: PRK06523 743722011254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011255 NAD(P) binding site [chemical binding]; other site 743722011256 active site 743722011257 short chain dehydrogenase; Provisional; Region: PRK06523 743722011258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011259 NAD(P) binding site [chemical binding]; other site 743722011260 active site 743722011261 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 743722011262 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722011263 Helix-turn-helix domains; Region: HTH; cl00088 743722011264 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011266 short chain dehydrogenase; Provisional; Region: PRK06180 743722011267 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722011268 NADP binding site [chemical binding]; other site 743722011269 active site 743722011270 steroid binding site; other site 743722011271 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722011272 Histidine kinase; Region: His_kinase; pfam06580 743722011273 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722011274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011275 active site 743722011276 phosphorylation site [posttranslational modification] 743722011277 intermolecular recognition site; other site 743722011278 dimerization interface [polypeptide binding]; other site 743722011279 LytTr DNA-binding domain; Region: LytTR; cl04498 743722011280 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722011281 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 743722011282 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 743722011283 putative acyl-acceptor binding pocket; other site 743722011284 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 743722011285 dimer interface [polypeptide binding]; other site 743722011286 FMN binding site [chemical binding]; other site 743722011287 Helix-turn-helix domains; Region: HTH; cl00088 743722011288 short chain dehydrogenase; Provisional; Region: PRK06180 743722011289 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722011290 NADP binding site [chemical binding]; other site 743722011291 active site 743722011292 steroid binding site; other site 743722011293 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 743722011294 ligand binding site [chemical binding]; other site 743722011295 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722011296 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722011297 FtsX-like permease family; Region: FtsX; cl15850 743722011298 FtsX-like permease family; Region: FtsX; cl15850 743722011299 short chain dehydrogenase; Provisional; Region: PRK06482 743722011300 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722011301 NADP binding site [chemical binding]; other site 743722011302 active site 743722011303 steroid binding site; other site 743722011304 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722011305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011306 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 743722011307 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 743722011308 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 743722011309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722011310 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 743722011311 protein-splicing catalytic site; other site 743722011312 thioester formation/cholesterol transfer; other site 743722011313 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 743722011314 protein-splicing catalytic site; other site 743722011315 thioester formation/cholesterol transfer; other site 743722011316 F-box associated region; Region: FBA; pfam04300 743722011317 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011319 short chain dehydrogenase; Provisional; Region: PRK06180 743722011320 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722011321 NADP binding site [chemical binding]; other site 743722011322 active site 743722011323 steroid binding site; other site 743722011324 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 743722011325 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 743722011326 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 743722011327 ligand binding site [chemical binding]; other site 743722011328 flexible hinge region; other site 743722011329 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 743722011330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011331 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 743722011332 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 743722011333 oligomeric interface; other site 743722011334 putative active site [active] 743722011335 homodimer interface [polypeptide binding]; other site 743722011336 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 743722011337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011338 Walker A/P-loop; other site 743722011339 ATP binding site [chemical binding]; other site 743722011340 Q-loop/lid; other site 743722011341 ABC transporter signature motif; other site 743722011342 Walker B; other site 743722011343 D-loop; other site 743722011344 H-loop/switch region; other site 743722011345 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 743722011346 classical (c) SDRs; Region: SDR_c; cd05233 743722011347 NAD(P) binding site [chemical binding]; other site 743722011348 active site 743722011349 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 743722011350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011351 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 743722011352 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722011353 Transposase [DNA replication, recombination, and repair]; Region: COG5433 743722011354 Transposase [DNA replication, recombination, and repair]; Region: COG5433 743722011355 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722011356 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011357 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 743722011358 DNA binding residues [nucleotide binding] 743722011359 FecR protein; Region: FecR; pfam04773 743722011360 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722011361 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722011362 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011363 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011364 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 743722011365 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722011366 L-lactate permease; Region: Lactate_perm; cl00701 743722011367 glycolate transporter; Provisional; Region: PRK09695 743722011368 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722011369 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722011370 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 743722011371 Walker A motif; other site 743722011372 ATP binding site [chemical binding]; other site 743722011373 Walker B motif; other site 743722011374 Helix-turn-helix domains; Region: HTH; cl00088 743722011375 Integrase core domain; Region: rve; cl01316 743722011376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 743722011377 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 743722011378 catalytic residues [active] 743722011379 Cupin domain; Region: Cupin_2; cl09118 743722011380 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722011381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011383 NAD(P) binding site [chemical binding]; other site 743722011384 active site 743722011385 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 743722011386 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 743722011387 NmrA-like family; Region: NmrA; pfam05368 743722011388 NADP binding site [chemical binding]; other site 743722011389 active site 743722011390 regulatory binding site [polypeptide binding]; other site 743722011391 Helix-turn-helix domains; Region: HTH; cl00088 743722011392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011393 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 743722011394 ligand binding site [chemical binding]; other site 743722011395 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722011396 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722011397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011398 Walker A/P-loop; other site 743722011399 ATP binding site [chemical binding]; other site 743722011400 Q-loop/lid; other site 743722011401 ABC transporter signature motif; other site 743722011402 Walker B; other site 743722011403 D-loop; other site 743722011404 H-loop/switch region; other site 743722011405 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 743722011406 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 743722011407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011408 Walker A/P-loop; other site 743722011409 ATP binding site [chemical binding]; other site 743722011410 Q-loop/lid; other site 743722011411 ABC transporter signature motif; other site 743722011412 Walker B; other site 743722011413 D-loop; other site 743722011414 H-loop/switch region; other site 743722011415 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722011416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011417 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722011418 DinB superfamily; Region: DinB_2; pfam12867 743722011419 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722011420 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011421 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722011422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011423 Cupin domain; Region: Cupin_2; cl09118 743722011424 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 743722011425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722011426 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 743722011427 active site 743722011428 metal binding site [ion binding]; metal-binding site 743722011429 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011431 short chain dehydrogenase; Provisional; Region: PRK12744 743722011432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011433 NAD(P) binding site [chemical binding]; other site 743722011434 active site 743722011435 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722011436 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722011437 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722011438 NIPSNAP; Region: NIPSNAP; pfam07978 743722011439 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 743722011440 short chain dehydrogenase; Provisional; Region: PRK06523 743722011441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011442 NAD(P) binding site [chemical binding]; other site 743722011443 active site 743722011444 Helix-turn-helix domains; Region: HTH; cl00088 743722011445 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 743722011446 putative hydrophobic ligand binding site [chemical binding]; other site 743722011447 Predicted amidohydrolase [General function prediction only]; Region: COG0388 743722011448 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 743722011449 active site 743722011450 catalytic triad [active] 743722011451 dimer interface [polypeptide binding]; other site 743722011452 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 743722011453 active site 743722011454 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722011455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 743722011456 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 743722011457 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 743722011458 active site 743722011459 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 743722011460 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722011461 Sulfatase; Region: Sulfatase; cl10460 743722011462 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 743722011463 dimerization interface [polypeptide binding]; other site 743722011464 substrate binding site [chemical binding]; other site 743722011465 active site 743722011466 calcium binding site [ion binding]; other site 743722011467 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011468 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011469 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722011470 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011471 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011472 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 743722011473 AsmA-like C-terminal region; Region: AsmA_2; cl15864 743722011474 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 743722011475 Moco binding site; other site 743722011476 metal coordination site [ion binding]; other site 743722011477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011478 Response regulator receiver domain; Region: Response_reg; pfam00072 743722011479 active site 743722011480 phosphorylation site [posttranslational modification] 743722011481 intermolecular recognition site; other site 743722011482 dimerization interface [polypeptide binding]; other site 743722011483 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 743722011484 dimer interface [polypeptide binding]; other site 743722011485 ADP-ribose binding site [chemical binding]; other site 743722011486 active site 743722011487 nudix motif; other site 743722011488 metal binding site [ion binding]; metal-binding site 743722011489 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722011490 Helix-turn-helix domains; Region: HTH; cl00088 743722011491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011492 active site 743722011493 phosphorylation site [posttranslational modification] 743722011494 intermolecular recognition site; other site 743722011495 dimerization interface [polypeptide binding]; other site 743722011496 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 743722011497 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 743722011498 SpaB C-terminal domain; Region: SpaB_C; cl14828 743722011499 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722011500 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011501 active site 743722011502 phosphorylation site [posttranslational modification] 743722011503 intermolecular recognition site; other site 743722011504 dimerization interface [polypeptide binding]; other site 743722011505 LytTr DNA-binding domain; Region: LytTR; cl04498 743722011506 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722011507 Histidine kinase; Region: His_kinase; pfam06580 743722011508 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 743722011509 DNA-binding site [nucleotide binding]; DNA binding site 743722011510 RNA-binding motif; other site 743722011511 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 743722011512 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 743722011513 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011514 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 743722011515 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 743722011516 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 743722011517 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 743722011518 Di-iron ligands [ion binding]; other site 743722011519 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 743722011520 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 743722011521 putative di-iron ligands [ion binding]; other site 743722011522 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 743722011523 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 743722011524 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 743722011525 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 743722011526 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722011527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011528 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 743722011529 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722011530 Histidine kinase; Region: His_kinase; pfam06580 743722011531 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 743722011532 catalytic residues [active] 743722011533 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722011534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011535 active site 743722011536 phosphorylation site [posttranslational modification] 743722011537 intermolecular recognition site; other site 743722011538 dimerization interface [polypeptide binding]; other site 743722011539 LytTr DNA-binding domain; Region: LytTR; cl04498 743722011540 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 743722011541 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 743722011542 classical (c) SDRs; Region: SDR_c; cd05233 743722011543 NAD(P) binding site [chemical binding]; other site 743722011544 active site 743722011545 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722011546 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 743722011547 putative metal binding site [ion binding]; other site 743722011548 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 743722011549 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 743722011550 dimer interface [polypeptide binding]; other site 743722011551 substrate binding site [chemical binding]; other site 743722011552 ATP binding site [chemical binding]; other site 743722011553 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722011554 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722011555 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722011556 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 743722011557 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 743722011558 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722011559 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 743722011560 dimer interface [polypeptide binding]; other site 743722011561 Response regulator receiver domain; Region: Response_reg; pfam00072 743722011562 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011563 active site 743722011564 phosphorylation site [posttranslational modification] 743722011565 intermolecular recognition site; other site 743722011566 dimerization interface [polypeptide binding]; other site 743722011567 PAS domain; Region: PAS_9; pfam13426 743722011568 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 743722011569 Histidine kinase; Region: HisKA_3; pfam07730 743722011570 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722011571 ATP binding site [chemical binding]; other site 743722011572 Mg2+ binding site [ion binding]; other site 743722011573 G-X-G motif; other site 743722011574 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722011575 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722011576 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 743722011577 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722011578 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 743722011579 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 743722011580 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011581 YCII-related domain; Region: YCII; cl00999 743722011582 transcription elongation factor GreA; Region: greA; TIGR01462 743722011583 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 743722011584 Cupin domain; Region: Cupin_2; cl09118 743722011585 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011587 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 743722011588 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 743722011589 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 743722011590 S-adenosylmethionine binding site [chemical binding]; other site 743722011591 FOG: CBS domain [General function prediction only]; Region: COG0517 743722011592 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 743722011593 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 743722011594 putative catalytic site [active] 743722011595 putative phosphate binding site [ion binding]; other site 743722011596 active site 743722011597 metal binding site A [ion binding]; metal-binding site 743722011598 DNA binding site [nucleotide binding] 743722011599 putative AP binding site [nucleotide binding]; other site 743722011600 putative metal binding site B [ion binding]; other site 743722011601 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 743722011602 dimer interface [polypeptide binding]; other site 743722011603 catalytic triad [active] 743722011604 peroxidatic and resolving cysteines [active] 743722011605 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 743722011606 ligand binding site [chemical binding]; other site 743722011607 flexible hinge region; other site 743722011608 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011609 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722011610 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 743722011611 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 743722011612 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722011613 ATP binding site [chemical binding]; other site 743722011614 Mg2+ binding site [ion binding]; other site 743722011615 G-X-G motif; other site 743722011616 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 743722011617 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 743722011618 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 743722011619 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 743722011620 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 743722011621 Walker A/P-loop; other site 743722011622 ATP binding site [chemical binding]; other site 743722011623 Q-loop/lid; other site 743722011624 ABC transporter signature motif; other site 743722011625 Walker B; other site 743722011626 D-loop; other site 743722011627 H-loop/switch region; other site 743722011628 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 743722011629 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 743722011630 dimer interface [polypeptide binding]; other site 743722011631 conserved gate region; other site 743722011632 putative PBP binding loops; other site 743722011633 ABC-ATPase subunit interface; other site 743722011634 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 743722011635 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 743722011636 dimer interface [polypeptide binding]; other site 743722011637 conserved gate region; other site 743722011638 putative PBP binding loops; other site 743722011639 ABC-ATPase subunit interface; other site 743722011640 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 743722011641 dimerization interface [polypeptide binding]; other site 743722011642 Helix-turn-helix domains; Region: HTH; cl00088 743722011643 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 743722011644 non-specific DNA binding site [nucleotide binding]; other site 743722011645 salt bridge; other site 743722011646 sequence-specific DNA binding site [nucleotide binding]; other site 743722011647 NMT1-like family; Region: NMT1_2; cl15260 743722011648 NMT1/THI5 like; Region: NMT1; pfam09084 743722011649 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 743722011650 dimer interface [polypeptide binding]; other site 743722011651 conserved gate region; other site 743722011652 ABC-ATPase subunit interface; other site 743722011653 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 743722011654 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 743722011655 Walker A/P-loop; other site 743722011656 ATP binding site [chemical binding]; other site 743722011657 Q-loop/lid; other site 743722011658 ABC transporter signature motif; other site 743722011659 Walker B; other site 743722011660 D-loop; other site 743722011661 H-loop/switch region; other site 743722011662 NIL domain; Region: NIL; cl09633 743722011663 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722011664 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 743722011665 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722011666 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 743722011667 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 743722011668 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 743722011669 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011670 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011671 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011672 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722011673 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 743722011674 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 743722011675 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 743722011676 DAK2 domain; Region: Dak2; cl03685 743722011677 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 743722011678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722011679 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 743722011680 Zn binding site [ion binding]; other site 743722011681 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 743722011682 active site 743722011683 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 743722011684 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 743722011685 NADP binding site [chemical binding]; other site 743722011686 Surface antigen; Region: Bac_surface_Ag; cl03097 743722011687 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 743722011688 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 743722011689 H+ Antiporter protein; Region: 2A0121; TIGR00900 743722011690 putative substrate translocation pore; other site 743722011691 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 743722011692 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 743722011693 N- and C-terminal domain interface [polypeptide binding]; other site 743722011694 putative active site [active] 743722011695 catalytic site [active] 743722011696 metal binding site [ion binding]; metal-binding site 743722011697 carbohydrate binding site [chemical binding]; other site 743722011698 ATP binding site [chemical binding]; other site 743722011699 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722011700 Sulfatase; Region: Sulfatase; cl10460 743722011701 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 743722011702 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 743722011703 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 743722011704 putative catalytic site [active] 743722011705 putative metal binding site [ion binding]; other site 743722011706 putative phosphate binding site [ion binding]; other site 743722011707 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 743722011708 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722011709 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 743722011710 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 743722011711 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722011712 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 743722011713 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722011714 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722011715 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722011716 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011717 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 743722011718 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722011719 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 743722011720 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 743722011721 oligomerisation interface [polypeptide binding]; other site 743722011722 mobile loop; other site 743722011723 roof hairpin; other site 743722011724 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 743722011725 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 743722011726 Integral membrane protein DUF92; Region: DUF92; cl00793 743722011727 YceI-like domain; Region: YceI; cl01001 743722011728 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 743722011729 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 743722011730 active site 743722011731 intersubunit interface [polypeptide binding]; other site 743722011732 catalytic residue [active] 743722011733 galactonate dehydratase; Provisional; Region: PRK14017 743722011734 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 743722011735 putative active site pocket [active] 743722011736 putative metal binding site [ion binding]; other site 743722011737 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 743722011738 D-galactonate transporter; Region: 2A0114; TIGR00893 743722011739 putative substrate translocation pore; other site 743722011740 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 743722011741 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 743722011742 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 743722011743 Major Facilitator Superfamily; Region: MFS_1; pfam07690 743722011744 putative substrate translocation pore; other site 743722011745 cyclically-permuted mutatrotase family protein; Region: mutarot_permut; TIGR03548 743722011746 Kelch motif; Region: Kelch_1; cl02701 743722011747 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 743722011748 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 743722011749 catalytic residue [active] 743722011750 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 743722011751 catalytic site [active] 743722011752 BNR repeat-like domain; Region: BNR_2; pfam13088 743722011753 Asp-box motif; other site 743722011754 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 743722011755 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 743722011756 inhibitor site; inhibition site 743722011757 active site 743722011758 dimer interface [polypeptide binding]; other site 743722011759 catalytic residue [active] 743722011760 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 743722011761 catalytic site [active] 743722011762 BNR repeat-like domain; Region: BNR_2; pfam13088 743722011763 Asp-box motif; other site 743722011764 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 743722011765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722011766 DNA-binding site [nucleotide binding]; DNA binding site 743722011767 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 743722011768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722011769 homodimer interface [polypeptide binding]; other site 743722011770 catalytic residue [active] 743722011771 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 743722011772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011773 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 743722011774 short chain dehydrogenase; Provisional; Region: PRK06123 743722011775 classical (c) SDRs; Region: SDR_c; cd05233 743722011776 NAD(P) binding site [chemical binding]; other site 743722011777 active site 743722011778 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011779 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 743722011780 putative hydrophobic ligand binding site [chemical binding]; other site 743722011781 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 743722011782 dimerization interface [polypeptide binding]; other site 743722011783 putative DNA binding site [nucleotide binding]; other site 743722011784 putative Zn2+ binding site [ion binding]; other site 743722011785 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722011786 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 743722011787 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 743722011788 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 743722011789 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 743722011790 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 743722011791 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 743722011792 RteC protein; Region: RteC; pfam09357 743722011793 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 743722011794 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 743722011795 active site 743722011796 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722011797 Helix-turn-helix domains; Region: HTH; cl00088 743722011798 Helix-turn-helix domains; Region: HTH; cl00088 743722011799 metal binding site 2 [ion binding]; metal-binding site 743722011800 putative DNA binding helix; other site 743722011801 metal binding site 1 [ion binding]; metal-binding site 743722011802 dimer interface [polypeptide binding]; other site 743722011803 structural Zn2+ binding site [ion binding]; other site 743722011804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722011805 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 743722011806 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722011807 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722011809 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722011810 Cupin domain; Region: Cupin_2; cl09118 743722011811 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722011812 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722011813 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722011814 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722011815 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 743722011816 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722011817 Helix-turn-helix domains; Region: HTH; cl00088 743722011818 Domain of unknown function (DUF932); Region: DUF932; cl12129 743722011819 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 743722011820 dimer interface [polypeptide binding]; other site 743722011821 ssDNA binding site [nucleotide binding]; other site 743722011822 tetramer (dimer of dimers) interface [polypeptide binding]; other site 743722011823 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 743722011824 catalytic residues [active] 743722011825 catalytic nucleophile [active] 743722011826 Recombinase; Region: Recombinase; pfam07508 743722011827 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 743722011828 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 743722011829 catalytic residues [active] 743722011830 catalytic nucleophile [active] 743722011831 Recombinase; Region: Recombinase; pfam07508 743722011832 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 743722011833 Glycerate kinase family; Region: Gly_kinase; cl00841 743722011834 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 743722011835 Protein export membrane protein; Region: SecD_SecF; cl14618 743722011836 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722011837 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 743722011838 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 743722011839 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 743722011840 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722011841 Helix-turn-helix domains; Region: HTH; cl00088 743722011842 WHG domain; Region: WHG; pfam13305 743722011843 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 743722011844 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 743722011845 active site 743722011846 Zn binding site [ion binding]; other site 743722011847 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 743722011848 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 743722011849 dimer interface [polypeptide binding]; other site 743722011850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722011851 catalytic residue [active] 743722011852 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 743722011853 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722011854 Transposase [DNA replication, recombination, and repair]; Region: COG5433 743722011855 Transposase [DNA replication, recombination, and repair]; Region: COG5433 743722011856 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722011857 Histidine kinase; Region: His_kinase; pfam06580 743722011858 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722011859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722011860 active site 743722011861 phosphorylation site [posttranslational modification] 743722011862 intermolecular recognition site; other site 743722011863 dimerization interface [polypeptide binding]; other site 743722011864 LytTr DNA-binding domain; Region: LytTR; cl04498 743722011865 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 743722011866 Phytase; Region: Phytase; pfam02333 743722011867 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722011868 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722011869 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 743722011870 binding surface 743722011871 TPR motif; other site 743722011872 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722011873 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011874 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 743722011875 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 743722011876 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 743722011877 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 743722011878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722011879 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 743722011880 active site residue [active] 743722011881 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 743722011882 active site residue [active] 743722011883 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; cl16911 743722011884 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 743722011885 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 743722011886 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 743722011887 homodimer interface [polypeptide binding]; other site 743722011888 substrate-cofactor binding pocket; other site 743722011889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722011890 catalytic residue [active] 743722011891 prolyl-tRNA synthetase; Provisional; Region: PRK08661 743722011892 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_arch_euk; cd00778 743722011893 dimer interface [polypeptide binding]; other site 743722011894 motif 1; other site 743722011895 active site 743722011896 motif 2; other site 743722011897 motif 3; other site 743722011898 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 743722011899 anticodon binding site; other site 743722011900 zinc-binding site [ion binding]; other site 743722011901 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722011902 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 743722011903 putative hydrophobic ligand binding site [chemical binding]; other site 743722011904 CLM binding site; other site 743722011905 L1 loop; other site 743722011906 DNA binding site [nucleotide binding] 743722011907 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722011908 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 743722011909 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722011910 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 743722011911 DNA binding residues [nucleotide binding] 743722011912 YceI-like domain; Region: YceI; cl01001 743722011913 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 743722011914 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 743722011915 dimerization interface [polypeptide binding]; other site 743722011916 DPS ferroxidase diiron center [ion binding]; other site 743722011917 ion pore; other site 743722011918 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 743722011919 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 743722011920 dimer interface [polypeptide binding]; other site 743722011921 active site residues [active] 743722011922 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 743722011923 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 743722011924 putative peptidoglycan binding site; other site 743722011925 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722011926 active site 743722011927 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 743722011928 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 743722011929 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 743722011930 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 743722011931 MutS2 homologs in bacteria and 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 also...; Region: ABC_MutS2; cd03280 743722011932 Walker A/P-loop; other site 743722011933 ATP binding site [chemical binding]; other site 743722011934 Q-loop/lid; other site 743722011935 ABC transporter signature motif; other site 743722011936 Walker B; other site 743722011937 D-loop; other site 743722011938 H-loop/switch region; other site 743722011939 Plant ATP synthase F0; Region: YMF19; cl07975 743722011940 Smr domain; Region: Smr; cl02619 743722011941 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 743722011942 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 743722011943 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 743722011944 catalytic residue [active] 743722011945 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 743722011946 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722011947 Coenzyme A binding pocket [chemical binding]; other site 743722011948 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 743722011949 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 743722011950 Pyrococcus aspartate kinase subunit, putative; Region: AspKin_pair; TIGR02078 743722011951 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 743722011952 nucleotide binding site [chemical binding]; other site 743722011953 substrate binding site [chemical binding]; other site 743722011954 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 743722011955 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 743722011956 S-adenosylmethionine binding site [chemical binding]; other site 743722011957 Protein of unknown function (DUF502); Region: DUF502; cl01107 743722011958 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 743722011959 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 743722011960 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 743722011961 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 743722011962 active site 743722011963 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 743722011964 dimer interface [polypeptide binding]; other site 743722011965 substrate binding site [chemical binding]; other site 743722011966 catalytic residues [active] 743722011967 RecX family; Region: RecX; cl00936 743722011968 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722011969 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 743722011970 ligand binding site [chemical binding]; other site 743722011971 flexible hinge region; other site 743722011972 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722011973 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 743722011974 DNA-binding site [nucleotide binding]; DNA binding site 743722011975 RNA-binding motif; other site 743722011976 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 743722011977 putative metal binding site [ion binding]; other site 743722011978 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 743722011979 Uncharacterized conserved protein [Function unknown]; Region: COG2128 743722011980 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722011981 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 743722011982 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722011983 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 743722011984 DNA binding residues [nucleotide binding] 743722011985 FecR protein; Region: FecR; pfam04773 743722011986 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722011987 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722011988 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722011989 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722011990 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722011991 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722011992 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722011993 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 743722011994 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722011995 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 743722011996 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 743722011997 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 743722011998 NAD binding site [chemical binding]; other site 743722011999 catalytic Zn binding site [ion binding]; other site 743722012000 structural Zn binding site [ion binding]; other site 743722012001 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 743722012002 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722012003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722012004 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 743722012005 DNA binding residues [nucleotide binding] 743722012006 FecR protein; Region: FecR; pfam04773 743722012007 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722012008 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012009 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012010 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 743722012011 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012012 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722012013 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 743722012014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 743722012015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 743722012016 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 743722012017 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 743722012018 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 743722012019 DNA-binding site [nucleotide binding]; DNA binding site 743722012020 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 743722012021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722012022 homodimer interface [polypeptide binding]; other site 743722012023 catalytic residue [active] 743722012024 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 743722012025 AMP-binding enzyme; Region: AMP-binding; cl15778 743722012026 AMP-binding enzyme; Region: AMP-binding; cl15778 743722012027 Phosphopantetheine attachment site; Region: PP-binding; cl09936 743722012028 thioester reductase domain; Region: Thioester-redct; TIGR01746 743722012029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012030 NAD(P) binding site [chemical binding]; other site 743722012031 active site 743722012032 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722012033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012034 active site 743722012035 phosphorylation site [posttranslational modification] 743722012036 intermolecular recognition site; other site 743722012037 dimerization interface [polypeptide binding]; other site 743722012038 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 743722012039 Moco binding site; other site 743722012040 metal coordination site [ion binding]; other site 743722012041 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 743722012042 Cytochrome c; Region: Cytochrom_C; cl11414 743722012043 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012044 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012045 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012046 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722012047 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 743722012048 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 743722012049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012050 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 743722012051 Predicted deacylase [General function prediction only]; Region: COG3608 743722012052 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 743722012053 active site 743722012054 Zn binding site [ion binding]; other site 743722012055 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 743722012056 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 743722012057 GDP-binding site [chemical binding]; other site 743722012058 ACT binding site; other site 743722012059 IMP binding site; other site 743722012060 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722012061 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 743722012062 ligand binding site [chemical binding]; other site 743722012063 flexible hinge region; other site 743722012064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012065 active site 743722012066 phosphorylation site [posttranslational modification] 743722012067 intermolecular recognition site; other site 743722012068 dimerization interface [polypeptide binding]; other site 743722012069 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 743722012070 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 743722012071 active site 743722012072 metal binding site [ion binding]; metal-binding site 743722012073 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 743722012074 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 743722012075 Walker A/P-loop; other site 743722012076 ATP binding site [chemical binding]; other site 743722012077 Q-loop/lid; other site 743722012078 ABC transporter signature motif; other site 743722012079 Walker B; other site 743722012080 D-loop; other site 743722012081 H-loop/switch region; other site 743722012082 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 743722012083 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 743722012084 dimer interface [polypeptide binding]; other site 743722012085 conserved gate region; other site 743722012086 putative PBP binding loops; other site 743722012087 ABC-ATPase subunit interface; other site 743722012088 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 743722012089 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 743722012090 dimer interface [polypeptide binding]; other site 743722012091 conserved gate region; other site 743722012092 putative PBP binding loops; other site 743722012093 ABC-ATPase subunit interface; other site 743722012094 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 743722012095 Response regulator receiver domain; Region: Response_reg; pfam00072 743722012096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012097 active site 743722012098 phosphorylation site [posttranslational modification] 743722012099 intermolecular recognition site; other site 743722012100 dimerization interface [polypeptide binding]; other site 743722012101 PAS fold; Region: PAS_3; pfam08447 743722012102 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 743722012103 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 743722012104 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 743722012105 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 743722012106 dimer interface [polypeptide binding]; other site 743722012107 phosphorylation site [posttranslational modification] 743722012108 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012109 ATP binding site [chemical binding]; other site 743722012110 Mg2+ binding site [ion binding]; other site 743722012111 G-X-G motif; other site 743722012112 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722012113 Helix-turn-helix domains; Region: HTH; cl00088 743722012114 amidase; Provisional; Region: PRK11910 743722012115 Histidine kinase; Region: His_kinase; pfam06580 743722012116 Histidine kinase-like ATPases; This family includes several ATP-binding 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 743722012117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012118 Response regulator receiver domain; Region: Response_reg; pfam00072 743722012119 active site 743722012120 phosphorylation site [posttranslational modification] 743722012121 intermolecular recognition site; other site 743722012122 dimerization interface [polypeptide binding]; other site 743722012123 LytTr DNA-binding domain; Region: LytTR; cl04498 743722012124 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722012125 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722012126 SusD family; Region: SusD; pfam07980 743722012127 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012128 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012129 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 743722012130 Helix-turn-helix domains; Region: HTH; cl00088 743722012131 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 743722012132 Sulfatase; Region: Sulfatase; cl10460 743722012133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722012134 Coenzyme A binding pocket [chemical binding]; other site 743722012135 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 743722012136 Protein of unknown function, DUF417; Region: DUF417; cl01162 743722012137 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012139 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 743722012140 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 743722012141 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 743722012142 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 743722012143 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722012144 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 743722012145 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722012146 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 743722012147 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 743722012148 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 743722012149 catalytic residues [active] 743722012150 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 743722012151 catalytic residues [active] 743722012152 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012153 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012154 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 743722012155 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 743722012156 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012157 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722012158 Sulfatase; Region: Sulfatase; cl10460 743722012159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722012160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012161 short chain dehydrogenase; Provisional; Region: PRK06180 743722012162 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722012163 NADP binding site [chemical binding]; other site 743722012164 active site 743722012165 steroid binding site; other site 743722012166 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012167 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012168 maltose O-acetyltransferase; Provisional; Region: PRK10092 743722012169 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 743722012170 active site 743722012171 substrate binding site [chemical binding]; other site 743722012172 trimer interface [polypeptide binding]; other site 743722012173 CoA binding site [chemical binding]; other site 743722012174 Cupin domain; Region: Cupin_2; cl09118 743722012175 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 743722012176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012177 NAD(P) binding site [chemical binding]; other site 743722012178 active site 743722012179 GH3 auxin-responsive promoter; Region: GH3; cl04006 743722012180 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722012181 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 743722012182 active site 743722012183 catalytic tetrad [active] 743722012184 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722012185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722012186 FtsX-like permease family; Region: FtsX; cl15850 743722012187 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722012188 FtsX-like permease family; Region: FtsX; cl15850 743722012189 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 743722012190 putative hydrophobic ligand binding site [chemical binding]; other site 743722012191 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 743722012192 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012194 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 743722012195 Membrane transport protein; Region: Mem_trans; cl09117 743722012196 Low molecular weight phosphatase family; Region: LMWPc; cd00115 743722012197 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 743722012198 active site 743722012199 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 743722012200 dimerization interface [polypeptide binding]; other site 743722012201 putative DNA binding site [nucleotide binding]; other site 743722012202 putative Zn2+ binding site [ion binding]; other site 743722012203 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 743722012204 substrate binding pocket [chemical binding]; other site 743722012205 substrate-Mg2+ binding site; other site 743722012206 aspartate-rich region 1; other site 743722012207 aspartate-rich region 2; other site 743722012208 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 743722012209 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 743722012210 substrate binding [chemical binding]; other site 743722012211 active site 743722012212 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 743722012213 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 743722012214 putative substrate binding site [chemical binding]; other site 743722012215 putative ATP binding site [chemical binding]; other site 743722012216 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 743722012217 catalytic residues [active] 743722012218 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 743722012219 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 743722012220 putative NAD(P) binding site [chemical binding]; other site 743722012221 putative substrate binding site [chemical binding]; other site 743722012222 catalytic Zn binding site [ion binding]; other site 743722012223 structural Zn binding site [ion binding]; other site 743722012224 dimer interface [polypeptide binding]; other site 743722012225 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012227 Helix-turn-helix domains; Region: HTH; cl00088 743722012228 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 743722012229 dimer interface [polypeptide binding]; other site 743722012230 FMN binding site [chemical binding]; other site 743722012231 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 743722012232 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 743722012233 putative NAD(P) binding site [chemical binding]; other site 743722012234 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722012235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012236 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 743722012237 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 743722012238 putative substrate translocation pore; other site 743722012239 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 743722012240 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722012241 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 743722012242 active site 743722012243 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012244 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012245 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012246 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 743722012247 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 743722012248 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722012249 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722012250 DNA binding site [nucleotide binding] 743722012251 domain linker motif; other site 743722012252 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722012253 ligand binding site [chemical binding]; other site 743722012254 dimerization interface [polypeptide binding]; other site 743722012255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 743722012256 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 743722012257 dimer interface [polypeptide binding]; other site 743722012258 phosphorylation site [posttranslational modification] 743722012259 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012260 ATP binding site [chemical binding]; other site 743722012261 Mg2+ binding site [ion binding]; other site 743722012262 G-X-G motif; other site 743722012263 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 743722012264 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 743722012265 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012266 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722012267 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012268 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012269 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 743722012270 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722012271 FecR protein; Region: FecR; pfam04773 743722012272 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722012273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722012274 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 743722012275 DNA binding residues [nucleotide binding] 743722012276 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 743722012277 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 743722012278 oligomeric interface; other site 743722012279 putative active site [active] 743722012280 homodimer interface [polypeptide binding]; other site 743722012281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722012282 Coenzyme A binding pocket [chemical binding]; other site 743722012283 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722012284 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 743722012285 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012286 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 743722012287 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 743722012288 Histidine kinase; Region: His_kinase; pfam06580 743722012289 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722012290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012291 active site 743722012292 phosphorylation site [posttranslational modification] 743722012293 intermolecular recognition site; other site 743722012294 dimerization interface [polypeptide binding]; other site 743722012295 LytTr DNA-binding domain; Region: LytTR; cl04498 743722012296 Fic family protein [Function unknown]; Region: COG3177 743722012297 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 743722012298 Fic/DOC family; Region: Fic; cl00960 743722012299 TPR repeat; Region: TPR_11; pfam13414 743722012300 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 743722012301 Histidine kinase; Region: HisKA_3; pfam07730 743722012302 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012303 ATP binding site [chemical binding]; other site 743722012304 Mg2+ binding site [ion binding]; other site 743722012305 G-X-G motif; other site 743722012306 Helix-turn-helix domains; Region: HTH; cl00088 743722012307 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722012308 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 743722012309 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722012310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012311 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 743722012312 CAAX protease self-immunity; Region: Abi; cl00558 743722012313 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 743722012314 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 743722012315 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 743722012316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 743722012317 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 743722012318 Putative cyclase; Region: Cyclase; cl00814 743722012319 acyltransferase PapA5; Provisional; Region: PRK09294 743722012320 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722012321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012322 active site 743722012323 phosphorylation site [posttranslational modification] 743722012324 intermolecular recognition site; other site 743722012325 dimerization interface [polypeptide binding]; other site 743722012326 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 743722012327 DNA binding residues [nucleotide binding] 743722012328 dimerization interface [polypeptide binding]; other site 743722012329 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722012330 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722012331 Histidine kinase; Region: HisKA_3; pfam07730 743722012332 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012333 ATP binding site [chemical binding]; other site 743722012334 Mg2+ binding site [ion binding]; other site 743722012335 G-X-G motif; other site 743722012336 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 743722012337 protein-splicing catalytic site; other site 743722012338 thioester formation/cholesterol transfer; other site 743722012339 Pretoxin HINT domain; Region: PT-HINT; pfam07591 743722012340 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 743722012341 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 743722012342 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 743722012343 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 743722012344 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 743722012345 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 743722012346 Protein of unknown function (DUF877); Region: DUF877; pfam05943 743722012347 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 743722012348 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 743722012349 Walker A motif; other site 743722012350 ATP binding site [chemical binding]; other site 743722012351 Walker B motif; other site 743722012352 arginine finger; other site 743722012353 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 743722012354 Walker A motif; other site 743722012355 ATP binding site [chemical binding]; other site 743722012356 Walker B motif; other site 743722012357 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 743722012358 FOG: PKD repeat [General function prediction only]; Region: COG3291 743722012359 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 743722012360 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722012361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012362 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 743722012363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012364 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 743722012365 Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell division and chromosome partitioning]; Region: NIP100; COG5244 743722012366 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 743722012367 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 743722012368 Helix-turn-helix domains; Region: HTH; cl00088 743722012369 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 743722012370 FMN binding site [chemical binding]; other site 743722012371 active site 743722012372 substrate binding site [chemical binding]; other site 743722012373 catalytic residue [active] 743722012374 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 743722012375 active site 743722012376 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722012377 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722012378 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 743722012379 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722012380 FecR protein; Region: FecR; pfam04773 743722012381 Secretin and TonB N terminus short domain; Region: STN; cl06624 743722012382 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012383 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012384 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722012385 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 743722012386 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722012387 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722012388 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 743722012389 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 743722012390 NADP binding site [chemical binding]; other site 743722012391 putative substrate binding site [chemical binding]; other site 743722012392 active site 743722012393 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 743722012394 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 743722012395 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 743722012396 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 743722012397 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 743722012398 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012400 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 743722012401 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 743722012402 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012403 short chain dehydrogenase; Provisional; Region: PRK06197 743722012404 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 743722012405 putative NAD(P) binding site [chemical binding]; other site 743722012406 active site 743722012407 YCII-related domain; Region: YCII; cl00999 743722012408 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 743722012409 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 743722012410 active site 2 [active] 743722012411 active site 1 [active] 743722012412 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 743722012413 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 743722012414 putative Iron-sulfur protein interface [polypeptide binding]; other site 743722012415 proximal heme binding site [chemical binding]; other site 743722012416 distal heme binding site [chemical binding]; other site 743722012417 putative dimer interface [polypeptide binding]; other site 743722012418 YCII-related domain; Region: YCII; cl00999 743722012419 YCII-related domain; Region: YCII; cl00999 743722012420 Cupin domain; Region: Cupin_2; cl09118 743722012421 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 743722012422 NADH(P)-binding; Region: NAD_binding_10; pfam13460 743722012423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012424 NAD(P) binding site [chemical binding]; other site 743722012425 active site 743722012426 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_31; cd04690 743722012427 nudix motif; other site 743722012428 GAF domain; Region: GAF_2; pfam13185 743722012429 GAF domain; Region: GAF; cl15785 743722012430 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 743722012431 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 743722012432 Walker A motif; other site 743722012433 ATP binding site [chemical binding]; other site 743722012434 Walker B motif; other site 743722012435 arginine finger; other site 743722012436 Helix-turn-helix domains; Region: HTH; cl00088 743722012437 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722012438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 743722012439 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 743722012440 DNA binding residues [nucleotide binding] 743722012441 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 743722012442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012443 active site 743722012444 phosphorylation site [posttranslational modification] 743722012445 intermolecular recognition site; other site 743722012446 dimerization interface [polypeptide binding]; other site 743722012447 LytTr DNA-binding domain; Region: LytTR; cl04498 743722012448 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 743722012449 GAF domain; Region: GAF; cl15785 743722012450 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 743722012451 Walker A motif; other site 743722012452 ATP binding site [chemical binding]; other site 743722012453 Walker B motif; other site 743722012454 arginine finger; other site 743722012455 Helix-turn-helix domains; Region: HTH; cl00088 743722012456 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 743722012457 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 743722012458 tetramer interface [polypeptide binding]; other site 743722012459 heme binding pocket [chemical binding]; other site 743722012460 NADPH binding site [chemical binding]; other site 743722012461 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 743722012462 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 743722012463 substrate binding pocket [chemical binding]; other site 743722012464 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 743722012465 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 743722012466 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 743722012467 Walker A motif; other site 743722012468 ATP binding site [chemical binding]; other site 743722012469 Walker B motif; other site 743722012470 arginine finger; other site 743722012471 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 743722012472 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 743722012473 dimerization interface [polypeptide binding]; other site 743722012474 putative DNA binding site [nucleotide binding]; other site 743722012475 putative Zn2+ binding site [ion binding]; other site 743722012476 Haem-binding domain; Region: Haem_bd; pfam14376 743722012477 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012479 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722012480 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 743722012481 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 743722012482 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 743722012483 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 743722012484 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 743722012485 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 743722012486 Helix-turn-helix domains; Region: HTH; cl00088 743722012487 WHG domain; Region: WHG; pfam13305 743722012488 Cupin domain; Region: Cupin_2; cl09118 743722012489 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012491 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722012492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012493 active site 743722012494 phosphorylation site [posttranslational modification] 743722012495 intermolecular recognition site; other site 743722012496 dimerization interface [polypeptide binding]; other site 743722012497 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 743722012498 DNA binding residues [nucleotide binding] 743722012499 dimerization interface [polypeptide binding]; other site 743722012500 classical (c) SDRs; Region: SDR_c; cd05233 743722012501 pteridine reductase; Provisional; Region: PRK09135 743722012502 NAD(P) binding site [chemical binding]; other site 743722012503 active site 743722012504 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 743722012505 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 743722012506 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 743722012507 DNA binding residues [nucleotide binding] 743722012508 LytTr DNA-binding domain; Region: LytTR; cl04498 743722012509 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722012510 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 743722012511 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 743722012512 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012513 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012514 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012515 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722012516 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 743722012517 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 743722012518 catalytic residues [active] 743722012519 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 743722012520 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 743722012521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722012522 PLD-like domain; Region: PLDc_2; pfam13091 743722012523 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 743722012524 putative homodimer interface [polypeptide binding]; other site 743722012525 putative active site [active] 743722012526 catalytic site [active] 743722012527 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 743722012528 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 743722012529 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 743722012530 Integrase core domain; Region: rve; cl01316 743722012531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722012532 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 743722012533 EVE domain; Region: EVE; cl00728 743722012534 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 743722012535 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722012536 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 743722012537 Walker A motif; other site 743722012538 ATP binding site [chemical binding]; other site 743722012539 Walker B motif; other site 743722012540 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 743722012541 Integrase core domain; Region: rve; cl01316 743722012542 TIR domain; Region: TIR_2; cl15770 743722012543 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 743722012544 Catalytic domain of Protein Kinases; Region: PKc; cd00180 743722012545 active site 743722012546 ATP binding site [chemical binding]; other site 743722012547 substrate binding site [chemical binding]; other site 743722012548 activation loop (A-loop); other site 743722012549 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 743722012550 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 743722012551 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 743722012552 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 743722012553 Walker A motif; other site 743722012554 ATP binding site [chemical binding]; other site 743722012555 Walker B motif; other site 743722012556 Helix-turn-helix domains; Region: HTH; cl00088 743722012557 Integrase core domain; Region: rve; cl01316 743722012558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 743722012559 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 743722012560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012561 active site 743722012562 phosphorylation site [posttranslational modification] 743722012563 intermolecular recognition site; other site 743722012564 dimerization interface [polypeptide binding]; other site 743722012565 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 743722012566 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012567 ATP binding site [chemical binding]; other site 743722012568 Mg2+ binding site [ion binding]; other site 743722012569 G-X-G motif; other site 743722012570 antimicrobial peptide system protein, SdpA family; Region: export_SdpA; TIGR04034 743722012571 antimicrobial peptide, SdpC family; Region: toxin_SdpC; TIGR04032 743722012572 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 743722012573 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722012574 Helix-turn-helix domains; Region: HTH; cl00088 743722012575 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 743722012576 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012577 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 743722012578 ORF6N domain; Region: ORF6N; pfam10543 743722012579 MG2 domain; Region: A2M_N; pfam01835 743722012580 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012581 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 743722012582 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 743722012583 Domain interface; other site 743722012584 Active site tetrad [active] 743722012585 Peptide binding site; other site 743722012586 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 743722012587 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 743722012588 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 743722012589 Peptidase family M48; Region: Peptidase_M48; cl12018 743722012590 Protein of unknown function (DUF342); Region: DUF342; pfam03961 743722012591 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 743722012592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722012593 FtsX-like permease family; Region: FtsX; cl15850 743722012594 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 743722012595 FtsX-like permease family; Region: FtsX; cl15850 743722012596 Transposase; Region: DEDD_Tnp_IS110; pfam01548 743722012597 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 743722012598 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 743722012599 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012601 short chain dehydrogenase; Provisional; Region: PRK08263 743722012602 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722012603 NADP binding site [chemical binding]; other site 743722012604 active site 743722012605 steroid binding site; other site 743722012606 short chain dehydrogenase; Provisional; Region: PRK08263 743722012607 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 743722012608 NADP binding site [chemical binding]; other site 743722012609 active site 743722012610 steroid binding site; other site 743722012611 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012612 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 743722012613 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 743722012614 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 743722012615 oxidoreductase; Provisional; Region: PRK06196 743722012616 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 743722012617 putative NAD(P) binding site [chemical binding]; other site 743722012618 active site 743722012619 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012621 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 743722012622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 743722012623 Coenzyme A binding pocket [chemical binding]; other site 743722012624 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 743722012625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722012626 Walker A/P-loop; other site 743722012627 ATP binding site [chemical binding]; other site 743722012628 Q-loop/lid; other site 743722012629 ABC transporter signature motif; other site 743722012630 Walker B; other site 743722012631 D-loop; other site 743722012632 H-loop/switch region; other site 743722012633 Flavin Reductases; Region: FlaRed; cl00801 743722012634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012635 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 743722012636 NAD(P) binding site [chemical binding]; other site 743722012637 active site 743722012638 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012640 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 743722012641 Helix-turn-helix domains; Region: HTH; cl00088 743722012642 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 743722012643 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 743722012644 putative substrate translocation pore; other site 743722012645 Helix-turn-helix domain; Region: HTH_18; pfam12833 743722012646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012647 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 743722012648 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 743722012649 active site 743722012650 catalytic tetrad [active] 743722012651 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 743722012652 Helix-turn-helix domains; Region: HTH; cl00088 743722012653 Domain of unknown function (DUF303); Region: DUF303; pfam03629 743722012654 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722012655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012656 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 743722012657 dimer interface [polypeptide binding]; other site 743722012658 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 743722012659 Tetratricopeptide repeat; Region: TPR_6; pfam13174 743722012660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 743722012661 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 743722012662 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 743722012663 putative metal binding site [ion binding]; other site 743722012664 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 743722012665 active site 743722012666 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012667 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012668 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012669 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 743722012670 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 743722012671 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 743722012672 FecR protein; Region: FecR; pfam04773 743722012673 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 743722012674 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 743722012675 DNA binding residues [nucleotide binding] 743722012676 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 743722012677 putative ADP-ribose binding site [chemical binding]; other site 743722012678 putative active site [active] 743722012679 signal recognition particle protein Srp54; Provisional; Region: PRK00771 743722012680 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722012681 AAA domain; Region: AAA_33; pfam13671 743722012682 active site 743722012683 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 743722012684 dimerization interface [polypeptide binding]; other site 743722012685 putative DNA binding site [nucleotide binding]; other site 743722012686 putative Zn2+ binding site [ion binding]; other site 743722012687 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 743722012688 putative hydrophobic ligand binding site [chemical binding]; other site 743722012689 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_7; cd08353 743722012690 putative dimer interface [polypeptide binding]; other site 743722012691 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722012692 OpgC protein; Region: OpgC_C; cl00792 743722012693 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722012694 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 743722012695 Helix-turn-helix domains; Region: HTH; cl00088 743722012696 short chain dehydrogenase; Provisional; Region: PRK06523 743722012697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012698 NAD(P) binding site [chemical binding]; other site 743722012699 active site 743722012700 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 743722012701 hypothetical protein; Reviewed; Region: PRK09588 743722012702 WYL domain; Region: WYL; cl14852 743722012703 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 743722012704 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 743722012705 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 743722012706 DinB superfamily; Region: DinB_2; pfam12867 743722012707 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722012708 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 743722012709 active site 743722012710 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 743722012711 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 743722012712 conserved cys residue [active] 743722012713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012715 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 743722012716 putative hydrophobic ligand binding site [chemical binding]; other site 743722012717 DoxX; Region: DoxX; cl00976 743722012718 Protein of unknown function (DUF419); Region: DUF419; cl15265 743722012719 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 743722012720 active site 743722012721 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 743722012722 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 743722012723 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 743722012724 Tetratricopeptide repeat; Region: TPR_16; pfam13432 743722012725 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 743722012726 TPR motif; other site 743722012727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 743722012728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012729 Membrane transport protein; Region: Mem_trans; cl09117 743722012730 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722012731 Sulfatase; Region: Sulfatase; cl10460 743722012732 Glycosyl hydrolase family 43; Region: GH43_7; cd08986 743722012733 active site 743722012734 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012735 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012736 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012737 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 743722012738 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 743722012739 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722012740 Sulfatase; Region: Sulfatase; cl10460 743722012741 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 743722012742 Two component regulator propeller; Region: Reg_prop; pfam07494 743722012743 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 743722012744 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 743722012745 dimer interface [polypeptide binding]; other site 743722012746 phosphorylation site [posttranslational modification] 743722012747 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012748 ATP binding site [chemical binding]; other site 743722012749 Mg2+ binding site [ion binding]; other site 743722012750 G-X-G motif; other site 743722012751 Response regulator receiver domain; Region: Response_reg; pfam00072 743722012752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012753 active site 743722012754 phosphorylation site [posttranslational modification] 743722012755 intermolecular recognition site; other site 743722012756 dimerization interface [polypeptide binding]; other site 743722012757 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 743722012758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012759 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012760 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012761 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722012762 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 743722012763 N-terminal plug; other site 743722012764 ligand-binding site [chemical binding]; other site 743722012765 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 743722012766 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 743722012767 Methyltransferase domain; Region: Methyltransf_31; pfam13847 743722012768 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 743722012769 S-adenosylmethionine binding site [chemical binding]; other site 743722012770 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 743722012771 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 743722012772 Integrase core domain; Region: rve; cl01316 743722012773 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 743722012774 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 743722012775 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 743722012776 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 743722012777 hydroperoxidase II; Provisional; Region: katE; PRK11249 743722012778 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 743722012779 tetramer interface [polypeptide binding]; other site 743722012780 heme binding pocket [chemical binding]; other site 743722012781 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 743722012782 domain interactions; other site 743722012783 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 743722012784 dimerization interface [polypeptide binding]; other site 743722012785 metal binding site [ion binding]; metal-binding site 743722012786 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 743722012787 active site 743722012788 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 743722012789 putative substrate binding site [chemical binding]; other site 743722012790 active site 743722012791 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 743722012792 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 743722012793 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 743722012794 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012795 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012796 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012797 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722012798 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 743722012799 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 743722012800 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 743722012801 conserved cys residue [active] 743722012802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 743722012803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012804 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 743722012805 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 743722012806 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 743722012807 putative active site [active] 743722012808 putative catalytic site [active] 743722012809 DoxX; Region: DoxX; cl00976 743722012810 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 743722012811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 743722012812 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 743722012813 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 743722012814 MoaE homodimer interface [polypeptide binding]; other site 743722012815 MoaD interaction [polypeptide binding]; other site 743722012816 active site residues [active] 743722012817 Chromate transporter; Region: Chromate_transp; pfam02417 743722012818 Chromate transporter; Region: Chromate_transp; pfam02417 743722012819 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 743722012820 OpgC protein; Region: OpgC_C; cl00792 743722012821 Acyltransferase family; Region: Acyl_transf_3; pfam01757 743722012822 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 743722012823 Helix-turn-helix domains; Region: HTH; cl00088 743722012824 DinB superfamily; Region: DinB_2; pfam12867 743722012825 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 743722012826 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 743722012827 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012828 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 743722012829 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 743722012830 N-terminal plug; other site 743722012831 ligand-binding site [chemical binding]; other site 743722012832 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722012833 Family description; Region: UvrD_C_2; cl15862 743722012834 HRDC domain; Region: HRDC; cl02578 743722012835 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 743722012836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722012837 Walker A/P-loop; other site 743722012838 ATP binding site [chemical binding]; other site 743722012839 Q-loop/lid; other site 743722012840 ABC transporter signature motif; other site 743722012841 Walker B; other site 743722012842 D-loop; other site 743722012843 H-loop/switch region; other site 743722012844 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 743722012845 amphipathic channel; other site 743722012846 Asn-Pro-Ala signature motifs; other site 743722012847 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 743722012848 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 743722012849 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 743722012850 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 743722012851 endonuclease III; Region: ENDO3c; smart00478 743722012852 minor groove reading motif; other site 743722012853 helix-hairpin-helix signature motif; other site 743722012854 substrate binding pocket [chemical binding]; other site 743722012855 active site 743722012856 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 743722012857 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 743722012858 active site 743722012859 metal binding site [ion binding]; metal-binding site 743722012860 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 743722012861 glucokinase, proteobacterial type; Region: glk; TIGR00749 743722012862 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 743722012863 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 743722012864 aromatic acid decarboxylase; Validated; Region: PRK05920 743722012865 Flavoprotein; Region: Flavoprotein; cl08021 743722012866 Transcriptional regulators [Transcription]; Region: PurR; COG1609 743722012867 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 743722012868 DNA binding site [nucleotide binding] 743722012869 domain linker motif; other site 743722012870 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 743722012871 dimerization interface [polypeptide binding]; other site 743722012872 ligand binding site [chemical binding]; other site 743722012873 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012874 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012875 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 743722012876 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 743722012877 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722012878 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722012879 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722012880 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722012881 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 743722012882 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 743722012883 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722012884 starch binding outer membrane protein SusD; Region: SusD; cl15876 743722012885 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 743722012886 GntP family permease; Region: GntP_permease; pfam02447 743722012887 FOG: CBS domain [General function prediction only]; Region: COG0517 743722012888 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 743722012889 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 743722012890 metal binding triad; other site 743722012891 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 743722012892 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 743722012893 active site 743722012894 catalytic site [active] 743722012895 substrate binding site [chemical binding]; other site 743722012896 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 743722012897 Response regulator receiver domain; Region: Response_reg; pfam00072 743722012898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012899 active site 743722012900 phosphorylation site [posttranslational modification] 743722012901 intermolecular recognition site; other site 743722012902 dimerization interface [polypeptide binding]; other site 743722012903 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 743722012904 PAS domain; Region: PAS_9; pfam13426 743722012905 putative active site [active] 743722012906 heme pocket [chemical binding]; other site 743722012907 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 743722012908 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 743722012909 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 743722012910 dimer interface [polypeptide binding]; other site 743722012911 phosphorylation site [posttranslational modification] 743722012912 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722012913 ATP binding site [chemical binding]; other site 743722012914 Mg2+ binding site [ion binding]; other site 743722012915 G-X-G motif; other site 743722012916 Response regulator receiver domain; Region: Response_reg; pfam00072 743722012917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722012918 active site 743722012919 phosphorylation site [posttranslational modification] 743722012920 intermolecular recognition site; other site 743722012921 dimerization interface [polypeptide binding]; other site 743722012922 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 743722012923 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 743722012924 active site 743722012925 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 743722012926 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 743722012927 Ligand binding site; other site 743722012928 Putative Catalytic site; other site 743722012929 DXD motif; other site 743722012930 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 743722012931 dihydroorotase; Validated; Region: pyrC; PRK09357 743722012932 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 743722012933 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 743722012934 active site 743722012935 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 743722012936 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 743722012937 ligand binding site; other site 743722012938 oligomer interface; other site 743722012939 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 743722012940 dimer interface [polypeptide binding]; other site 743722012941 N-terminal domain interface [polypeptide binding]; other site 743722012942 sulfate 1 binding site; other site 743722012943 glycogen synthase; Provisional; Region: glgA; PRK00654 743722012944 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 743722012945 ADP-binding pocket [chemical binding]; other site 743722012946 homodimer interface [polypeptide binding]; other site 743722012947 glycogen branching enzyme; Provisional; Region: PRK12313 743722012948 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 743722012949 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 743722012950 active site 743722012951 catalytic site [active] 743722012952 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 743722012953 putative alpha-glucosidase; Provisional; Region: PRK10658 743722012954 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 743722012955 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 743722012956 trimer interface [polypeptide binding]; other site 743722012957 active site 743722012958 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 743722012959 catalytic site [active] 743722012960 acyltransferase PapA5; Provisional; Region: PRK09294 743722012961 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 743722012962 ATP phosphoribosyltransferase; Region: HisG; cl15266 743722012963 HisG, C-terminal domain; Region: HisG_C; cl06867 743722012964 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 743722012965 histidinol dehydrogenase; Region: hisD; TIGR00069 743722012966 NAD binding site [chemical binding]; other site 743722012967 dimerization interface [polypeptide binding]; other site 743722012968 product binding site; other site 743722012969 substrate binding site [chemical binding]; other site 743722012970 zinc binding site [ion binding]; other site 743722012971 catalytic residues [active] 743722012972 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 743722012973 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 743722012974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722012975 homodimer interface [polypeptide binding]; other site 743722012976 catalytic residue [active] 743722012977 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 743722012978 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 743722012979 active site 743722012980 motif I; other site 743722012981 motif II; other site 743722012982 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 743722012983 putative active site pocket [active] 743722012984 4-fold oligomerization interface [polypeptide binding]; other site 743722012985 metal binding residues [ion binding]; metal-binding site 743722012986 3-fold/trimer interface [polypeptide binding]; other site 743722012987 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 743722012988 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 743722012989 putative active site [active] 743722012990 oxyanion strand; other site 743722012991 catalytic triad [active] 743722012992 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 743722012993 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 743722012994 catalytic residues [active] 743722012995 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 743722012996 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 743722012997 substrate binding site [chemical binding]; other site 743722012998 glutamase interaction surface [polypeptide binding]; other site 743722012999 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 743722013000 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 743722013001 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 743722013002 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 743722013003 structural tetrad; other site 743722013004 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722013005 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 743722013006 Zn binding site [ion binding]; other site 743722013007 aminopeptidase N, Escherichia coli type; Region: pepN_proteo; TIGR02414 743722013008 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 743722013009 ArsC family; Region: ArsC; pfam03960 743722013010 putative catalytic residues [active] 743722013011 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 743722013012 putative active site [active] 743722013013 catalytic residue [active] 743722013014 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 743722013015 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 743722013016 5S rRNA interface [nucleotide binding]; other site 743722013017 CTC domain interface [polypeptide binding]; other site 743722013018 L16 interface [polypeptide binding]; other site 743722013019 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 743722013020 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 743722013021 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 743722013022 active site 743722013023 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 743722013024 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 743722013025 active site 743722013026 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 743722013027 short chain dehydrogenase; Provisional; Region: PRK12828 743722013028 classical (c) SDRs; Region: SDR_c; cd05233 743722013029 NAD(P) binding site [chemical binding]; other site 743722013030 active site 743722013031 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 743722013032 dimer interface [polypeptide binding]; other site 743722013033 ssDNA binding site [nucleotide binding]; other site 743722013034 tetramer (dimer of dimers) interface [polypeptide binding]; other site 743722013035 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 743722013036 OsmC-like protein; Region: OsmC; cl00767 743722013037 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 743722013038 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 743722013039 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 743722013040 N-terminal plug; other site 743722013041 ligand-binding site [chemical binding]; other site 743722013042 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 743722013043 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 743722013044 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 743722013045 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 743722013046 starch binding outer membrane protein SusD; Region: SusD; cd08977 743722013047 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 743722013048 Sulfatase; Region: Sulfatase; cl10460 743722013049 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 743722013050 catalytic site [active] 743722013051 BNR repeat-like domain; Region: BNR_2; pfam13088 743722013052 Asp-box motif; other site 743722013053 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 743722013054 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 743722013055 Survival protein SurE; Region: SurE; cl00448 743722013056 CsbD-like; Region: CsbD; cl15799 743722013057 acetyl-CoA synthetase; Provisional; Region: PRK00174 743722013058 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 743722013059 AMP-binding enzyme; Region: AMP-binding; cl15778 743722013060 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 743722013061 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 743722013062 putative substrate translocation pore; other site 743722013063 metabolite-proton symporter; Region: 2A0106; TIGR00883 743722013064 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 743722013065 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 743722013066 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 743722013067 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 743722013068 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 743722013069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722013070 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 743722013071 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 743722013072 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 743722013073 FeS/SAM binding site; other site 743722013074 TRAM domain; Region: TRAM; cl01282 743722013075 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 743722013076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 743722013077 Protein of unknown function (DUF419); Region: DUF419; cl15265 743722013078 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 743722013079 Membrane protein of unknown function; Region: DUF360; cl00850 743722013080 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 743722013081 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 743722013082 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 743722013083 substrate binding site [chemical binding]; other site 743722013084 active site 743722013085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 743722013086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 743722013087 active site 743722013088 phosphorylation site [posttranslational modification] 743722013089 intermolecular recognition site; other site 743722013090 dimerization interface [polypeptide binding]; other site 743722013091 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 743722013092 DNA binding site [nucleotide binding] 743722013093 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 743722013094 dimer interface [polypeptide binding]; other site 743722013095 phosphorylation site [posttranslational modification] 743722013096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 743722013097 ATP binding site [chemical binding]; other site 743722013098 Mg2+ binding site [ion binding]; other site 743722013099 G-X-G motif; other site 743722013100 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 743722013101 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 743722013102 inhibitor-cofactor binding pocket; inhibition site 743722013103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 743722013104 catalytic residue [active] 743722013105 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 743722013106 dimer interface [polypeptide binding]; other site 743722013107 active site 743722013108 Schiff base residues; other site 743722013109 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 743722013110 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 743722013111 domain interfaces; other site 743722013112 active site 743722013113 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 743722013114 active site 743722013115 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 743722013116 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 743722013117 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 743722013118 tRNA; other site 743722013119 putative tRNA binding site [nucleotide binding]; other site 743722013120 putative NADP binding site [chemical binding]; other site 743722013121 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 743722013122 periplasmic chaperone; Provisional; Region: PRK10780 743722013123 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 743722013124 periplasmic chaperone; Provisional; Region: PRK10780 743722013125 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 743722013126 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 743722013127 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 743722013128 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 743722013129 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 743722013130 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 743722013131 Surface antigen; Region: Bac_surface_Ag; cl03097 743722013132 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; cd00475 743722013133 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 743722013134 catalytic residue [active] 743722013135 putative FPP diphosphate binding site; other site 743722013136 putative FPP binding hydrophobic cleft; other site 743722013137 dimer interface [polypeptide binding]; other site 743722013138 putative IPP diphosphate binding site; other site 743722013139 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722013140 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 743722013141 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 743722013142 FOG: CBS domain [General function prediction only]; Region: COG0517 743722013143 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 743722013144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722013145 GatB domain; Region: GatB_Yqey; cl11497 743722013146 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 743722013147 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 743722013148 putative NAD(P) binding site [chemical binding]; other site 743722013149 homodimer interface [polypeptide binding]; other site 743722013150 homotetramer interface [polypeptide binding]; other site 743722013151 active site 743722013152 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722013153 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 743722013154 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 743722013155 S-adenosylmethionine binding site [chemical binding]; other site 743722013156 Predicted GTPase [General function prediction only]; Region: COG0218 743722013157 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 743722013158 G1 box; other site 743722013159 GTP/Mg2+ binding site [chemical binding]; other site 743722013160 Switch I region; other site 743722013161 G2 box; other site 743722013162 G3 box; other site 743722013163 Switch II region; other site 743722013164 G4 box; other site 743722013165 G5 box; other site 743722013166 UbiA prenyltransferase family; Region: UbiA; cl00337 743722013167 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 743722013168 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 743722013169 active site 743722013170 Zn binding site [ion binding]; other site 743722013171 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 743722013172 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 743722013173 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 743722013174 motif II; other site 743722013175 Peptidase family M49; Region: Peptidase_M49; pfam03571 743722013176 seryl-tRNA synthetase; Provisional; Region: PRK05431 743722013177 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 743722013178 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 743722013179 dimer interface [polypeptide binding]; other site 743722013180 active site 743722013181 motif 1; other site 743722013182 motif 2; other site 743722013183 motif 3; other site 743722013184 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 743722013185 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 743722013186 Short C-terminal domain; Region: SHOCT; cl01373 743722013187 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 743722013188 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 743722013189 putative active site [active] 743722013190 catalytic triad [active] 743722013191 putative dimer interface [polypeptide binding]; other site 743722013192 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 743722013193 NAD synthetase; Provisional; Region: PRK13981 743722013194 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 743722013195 multimer interface [polypeptide binding]; other site 743722013196 active site 743722013197 catalytic triad [active] 743722013198 protein interface 1 [polypeptide binding]; other site 743722013199 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 743722013200 homodimer interface [polypeptide binding]; other site 743722013201 NAD binding pocket [chemical binding]; other site 743722013202 ATP binding pocket [chemical binding]; other site 743722013203 Mg binding site [ion binding]; other site 743722013204 active-site loop [active] 743722013205 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 743722013206 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 743722013207 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 743722013208 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 743722013209 ATP synthase; Region: ATP-synt; cl00365 743722013210 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 743722013211 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 743722013212 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 743722013213 beta subunit interaction interface [polypeptide binding]; other site 743722013214 Walker A motif; other site 743722013215 ATP binding site [chemical binding]; other site 743722013216 Walker B motif; other site 743722013217 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 743722013218 Plant ATP synthase F0; Region: YMF19; cl07975 743722013219 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 743722013220 Plant ATP synthase F0; Region: YMF19; cl07975 743722013221 ATP synthase A chain; Region: ATP-synt_A; cl00413 743722013222 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 743722013223 Tetratricopeptide repeat; Region: TPR_12; pfam13424 743722013224 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 743722013225 Transglycosylase; Region: Transgly; cl07896 743722013226 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 743722013227 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 743722013228 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 743722013229 GIY-YIG motif/motif A; other site 743722013230 active site 743722013231 catalytic site [active] 743722013232 putative DNA binding site [nucleotide binding]; other site 743722013233 metal binding site [ion binding]; metal-binding site 743722013234 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 743722013235 gliding motility associated protien GldN; Region: GldN; TIGR03523 743722013236 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 743722013237 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 743722013238 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 743722013239 active site 743722013240 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 743722013241 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 743722013242 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 743722013243 tetramerization interface [polypeptide binding]; other site 743722013244 NAD(P) binding site [chemical binding]; other site 743722013245 catalytic residues [active] 743722013246 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 743722013247 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 743722013248 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 743722013249 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 743722013250 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 743722013251 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 743722013252 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 743722013253 oligomer interface [polypeptide binding]; other site 743722013254 active site 743722013255 metal binding site [ion binding]; metal-binding site 743722013256 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 743722013257 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 743722013258 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 743722013259 dihydropteroate synthase; Region: DHPS; TIGR01496 743722013260 substrate binding pocket [chemical binding]; other site 743722013261 dimer interface [polypeptide binding]; other site 743722013262 inhibitor binding site; inhibition site 743722013263 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 743722013264 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 743722013265 shikimate kinase; Reviewed; Region: aroK; PRK00131 743722013266 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 743722013267 ADP binding site [chemical binding]; other site 743722013268 magnesium binding site [ion binding]; other site 743722013269 putative shikimate binding site; other site 743722013270 Protein of unknown function (DUF721); Region: DUF721; cl02324 743722013271 recombination protein F; Reviewed; Region: recF; PRK00064 743722013272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722013273 Walker A/P-loop; other site 743722013274 ATP binding site [chemical binding]; other site 743722013275 Q-loop/lid; other site 743722013276 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 743722013277 ABC transporter signature motif; other site 743722013278 Walker B; other site 743722013279 D-loop; other site 743722013280 H-loop/switch region; other site 743722013281 Tetratricopeptide repeat; Region: TPR_6; pfam13174 743722013282 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 743722013283 homopentamer interface [polypeptide binding]; other site 743722013284 active site 743722013285 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 743722013286 OsmC-like protein; Region: OsmC; cl00767 743722013287 lipoyl synthase; Provisional; Region: PRK05481 743722013288 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 743722013289 FeS/SAM binding site; other site 743722013290 hypothetical protein; Provisional; Region: PHA02992 743722013291 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 743722013292 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 743722013293 putative substrate binding site [chemical binding]; other site 743722013294 putative ATP binding site [chemical binding]; other site 743722013295 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 743722013296 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 743722013297 THF binding site; other site 743722013298 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 743722013299 substrate binding site [chemical binding]; other site 743722013300 THF binding site; other site 743722013301 zinc-binding site [ion binding]; other site 743722013302 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 743722013303 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 743722013304 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 743722013305 MgtC family; Region: MgtC; pfam02308 743722013306 Domain of unknown function DUF59; Region: DUF59; cl00941 743722013307 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 743722013308 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 743722013309 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 743722013310 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 743722013311 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 743722013312 N-acetyl-D-glucosamine binding site [chemical binding]; other site 743722013313 catalytic residue [active] 743722013314 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 743722013315 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 743722013316 active site