-- dump date 20120504_151618 -- class Genbank::misc_feature -- table misc_feature_note -- id note 355276000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 355276000002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 355276000004 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 355276000005 homodimer interface [polypeptide binding]; other site 355276000006 substrate-cofactor binding pocket; other site 355276000007 catalytic residue [active] 355276000008 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 355276000009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276000010 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 355276000011 DnaA N-terminal domain; Region: DnaA_N; pfam11638 355276000012 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 355276000013 Walker A motif; other site 355276000014 ATP binding site [chemical binding]; other site 355276000015 Walker B motif; other site 355276000016 arginine finger; other site 355276000017 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 355276000018 DnaA box-binding interface [nucleotide binding]; other site 355276000019 DNA polymerase III subunit beta; Provisional; Region: PRK14942 355276000020 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 355276000021 putative DNA binding surface [nucleotide binding]; other site 355276000022 dimer interface [polypeptide binding]; other site 355276000023 beta-clamp/clamp loader binding surface; other site 355276000024 beta-clamp/translesion DNA polymerase binding surface; other site 355276000025 recombination protein F; Reviewed; Region: recF; PRK00064 355276000026 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 355276000027 Walker A/P-loop; other site 355276000028 ATP binding site [chemical binding]; other site 355276000029 Q-loop/lid; other site 355276000030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276000031 ABC transporter signature motif; other site 355276000032 Walker B; other site 355276000033 D-loop; other site 355276000034 H-loop/switch region; other site 355276000035 Protein of unknown function (DUF721); Region: DUF721; cl02324 355276000036 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 355276000037 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276000038 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 355276000039 anchoring element; other site 355276000040 dimer interface [polypeptide binding]; other site 355276000041 ATP binding site [chemical binding]; other site 355276000042 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 355276000043 active site 355276000044 putative metal-binding site [ion binding]; other site 355276000045 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 355276000046 DNA gyrase subunit A; Validated; Region: PRK05560 355276000047 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 355276000048 CAP-like domain; other site 355276000049 active site 355276000050 primary dimer interface [polypeptide binding]; other site 355276000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355276000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355276000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355276000054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355276000055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 355276000056 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 355276000057 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 355276000058 FMN binding site [chemical binding]; other site 355276000059 active site 355276000060 catalytic residues [active] 355276000061 substrate binding site [chemical binding]; other site 355276000062 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 355276000063 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355276000064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276000065 Helix-turn-helix domains; Region: HTH; cl00088 355276000066 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 355276000067 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 355276000068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000069 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000070 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000071 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276000072 cyclase homology domain; Region: CHD; cd07302 355276000073 nucleotidyl binding site; other site 355276000074 metal binding site [ion binding]; metal-binding site 355276000075 dimer interface [polypeptide binding]; other site 355276000076 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 355276000077 FliG C-terminal domain; Region: FliG_C; pfam01706 355276000078 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 355276000079 ArsC family; Region: ArsC; pfam03960 355276000080 putative ArsC-like catalytic residues; other site 355276000081 putative TRX-like catalytic residues [active] 355276000082 HEAT repeats; Region: HEAT_2; pfam13646 355276000083 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355276000084 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 355276000085 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276000086 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 355276000087 Vitamin K epoxide reductase family; Region: VKOR; cl01729 355276000088 Ycf2; Provisional; Region: ycf2; CHL00206 355276000089 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355276000090 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355276000091 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 355276000092 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 355276000093 catalytic residues [active] 355276000094 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK14004 355276000095 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 355276000096 putative active site [active] 355276000097 oxyanion strand; other site 355276000098 catalytic triad [active] 355276000099 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 355276000100 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 355276000101 putative active site pocket [active] 355276000102 4-fold oligomerization interface [polypeptide binding]; other site 355276000103 metal binding residues [ion binding]; metal-binding site 355276000104 3-fold/trimer interface [polypeptide binding]; other site 355276000105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276000106 Helix-turn-helix domains; Region: HTH; cl00088 355276000107 Rhomboid family; Region: Rhomboid; cl11446 355276000108 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 355276000109 nudix motif; other site 355276000110 peptide chain release factor 1; Validated; Region: prfA; PRK00591 355276000111 RF-1 domain; Region: RF-1; cl02875 355276000112 RF-1 domain; Region: RF-1; cl02875 355276000113 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 355276000114 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276000115 catalytic residue [active] 355276000116 MASE1; Region: MASE1; pfam05231 355276000117 aminodeoxychorismate synthase; Provisional; Region: PRK07508 355276000118 chorismate binding enzyme; Region: Chorismate_bind; cl10555 355276000119 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; cl00224 355276000120 substrate-cofactor binding pocket; other site 355276000121 homodimer interface [polypeptide binding]; other site 355276000122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276000123 catalytic residue [active] 355276000124 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276000125 AMP-binding enzyme; Region: AMP-binding; cl15778 355276000126 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355276000127 AMP-binding enzyme; Region: AMP-binding; cl15778 355276000128 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000130 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000131 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355276000132 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276000133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000134 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000135 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000136 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 355276000137 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 355276000138 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 355276000139 trimer interface [polypeptide binding]; other site 355276000140 active site 355276000141 UDP-GlcNAc binding site [chemical binding]; other site 355276000142 lipid binding site [chemical binding]; lipid-binding site 355276000143 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355276000144 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 355276000145 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 355276000146 FAD binding pocket [chemical binding]; other site 355276000147 conserved FAD binding motif [chemical binding]; other site 355276000148 phosphate binding motif [ion binding]; other site 355276000149 beta-alpha-beta structure motif; other site 355276000150 NAD binding pocket [chemical binding]; other site 355276000151 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 355276000152 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 355276000153 nucleoside/Zn binding site; other site 355276000154 dimer interface [polypeptide binding]; other site 355276000155 catalytic motif [active] 355276000156 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14956 355276000157 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 355276000158 Walker A motif; other site 355276000159 ATP binding site [chemical binding]; other site 355276000160 Walker B motif; other site 355276000161 arginine finger; other site 355276000162 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 355276000163 recombination protein RecR; Reviewed; Region: recR; PRK00076 355276000164 RecR protein; Region: RecR; pfam02132 355276000165 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 355276000166 putative active site [active] 355276000167 putative metal-binding site [ion binding]; other site 355276000168 tetramer interface [polypeptide binding]; other site 355276000169 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 355276000170 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 355276000171 substrate binding pocket [chemical binding]; other site 355276000172 membrane-bound complex binding site; other site 355276000173 hinge residues; other site 355276000174 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355276000175 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 355276000176 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276000177 ligand binding site [chemical binding]; other site 355276000178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000179 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000180 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000181 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276000182 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 355276000183 binding surface 355276000184 TPR motif; other site 355276000185 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 355276000186 binding surface 355276000187 TPR motif; other site 355276000188 ribonuclease R; Region: RNase_R; TIGR02063 355276000189 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 355276000190 RNB domain; Region: RNB; pfam00773 355276000191 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 355276000192 RNA binding site [nucleotide binding]; other site 355276000193 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 355276000194 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 355276000195 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 355276000196 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 355276000197 dimerization interface [polypeptide binding]; other site 355276000198 domain crossover interface; other site 355276000199 redox-dependent activation switch; other site 355276000200 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 355276000201 active site 355276000202 dimerization interface [polypeptide binding]; other site 355276000203 Cytochrome c; Region: Cytochrom_C; cl11414 355276000204 Predicted membrane protein [Function unknown]; Region: COG3748 355276000205 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 355276000206 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 355276000207 active site 355276000208 Zn binding site [ion binding]; other site 355276000209 Protein of unknown function (DUF423); Region: DUF423; cl01008 355276000210 TRL-like protein family; Region: TRL; pfam13146 355276000211 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 355276000212 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276000213 FlgN protein; Region: FlgN; cl09176 355276000214 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 355276000215 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 355276000216 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355276000217 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 355276000218 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355276000219 FliW protein; Region: FliW; cl00740 355276000220 Global regulator protein family; Region: CsrA; cl00670 355276000221 Short C-terminal domain; Region: SHOCT; cl01373 355276000222 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 355276000223 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 355276000224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000225 intracellular protease, PfpI family; Region: PfpI; TIGR01382 355276000226 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 355276000227 conserved cys residue [active] 355276000228 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 355276000229 catalytic residues [active] 355276000230 dimer interface [polypeptide binding]; other site 355276000231 Helix-turn-helix domains; Region: HTH; cl00088 355276000232 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355276000233 extended (e) SDRs; Region: SDR_e; cd08946 355276000234 NAD(P) binding site [chemical binding]; other site 355276000235 active site 355276000236 substrate binding site [chemical binding]; other site 355276000237 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 355276000238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000239 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355276000240 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 355276000241 putative acyl-acceptor binding pocket; other site 355276000242 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 355276000243 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276000244 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355276000245 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276000246 Helix-turn-helix domain; Region: HTH_18; pfam12833 355276000247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355276000248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000249 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000250 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000251 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 355276000252 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 355276000253 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 355276000254 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 355276000255 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 355276000256 NADH dehydrogenase; Region: NADHdh; cl00469 355276000257 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 355276000258 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355276000259 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355276000260 Domain of unknown function (DUF897); Region: DUF897; cl01312 355276000261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000262 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000263 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000264 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 355276000265 cobalamin binding residues [chemical binding]; other site 355276000266 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 355276000267 putative BtuC binding residues; other site 355276000268 dimer interface [polypeptide binding]; other site 355276000269 acetyl-CoA synthetase; Provisional; Region: PRK00174 355276000270 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 355276000271 AMP-binding enzyme; Region: AMP-binding; cl15778 355276000272 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276000273 GTP cyclohydrolase I; Provisional; Region: PLN03044 355276000274 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 355276000275 homodecamer interface [polypeptide binding]; other site 355276000276 active site 355276000277 putative catalytic site residues [active] 355276000278 zinc binding site [ion binding]; other site 355276000279 GTP-CH-I/GFRP interaction surface; other site 355276000280 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 355276000281 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 355276000282 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 355276000283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000284 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355276000285 active site 355276000286 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 355276000287 catalytic core [active] 355276000288 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 355276000289 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 355276000290 quinone interaction residues [chemical binding]; other site 355276000291 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 355276000292 active site 355276000293 catalytic residues [active] 355276000294 FMN binding site [chemical binding]; other site 355276000295 substrate binding site [chemical binding]; other site 355276000296 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355276000297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000298 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000299 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000300 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276000301 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 355276000302 active site 355276000303 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 355276000304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355276000305 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 355276000306 DNA binding site [nucleotide binding] 355276000307 active site 355276000308 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276000309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276000310 dimer interface [polypeptide binding]; other site 355276000311 putative CheW interface [polypeptide binding]; other site 355276000312 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355276000313 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 355276000314 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 355276000315 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 355276000316 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 355276000317 putative active site [active] 355276000318 putative metal binding site [ion binding]; other site 355276000319 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355276000320 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 355276000321 dimerization interface [polypeptide binding]; other site 355276000322 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276000323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276000324 dimer interface [polypeptide binding]; other site 355276000325 putative CheW interface [polypeptide binding]; other site 355276000326 ketol-acid reductoisomerase; Provisional; Region: PRK05479 355276000327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000328 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 355276000329 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 355276000330 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355276000331 MutS-like 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...; Region: ABC_MutS-like; cd03283 355276000332 Walker A/P-loop; other site 355276000333 ATP binding site [chemical binding]; other site 355276000334 Q-loop/lid; other site 355276000335 ABC transporter signature motif; other site 355276000336 Walker B; other site 355276000337 D-loop; other site 355276000338 H-loop/switch region; other site 355276000339 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 355276000340 AsmA-like C-terminal region; Region: AsmA_2; cl15864 355276000341 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355276000342 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 355276000343 Walker A/P-loop; other site 355276000344 ATP binding site [chemical binding]; other site 355276000345 Q-loop/lid; other site 355276000346 ABC transporter signature motif; other site 355276000347 Walker B; other site 355276000348 D-loop; other site 355276000349 H-loop/switch region; other site 355276000350 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 355276000351 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 355276000352 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355276000353 Walker A/P-loop; other site 355276000354 ATP binding site [chemical binding]; other site 355276000355 Q-loop/lid; other site 355276000356 ABC transporter signature motif; other site 355276000357 Walker B; other site 355276000358 D-loop; other site 355276000359 H-loop/switch region; other site 355276000360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 355276000361 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 355276000362 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 355276000363 dimer interface [polypeptide binding]; other site 355276000364 conserved gate region; other site 355276000365 putative PBP binding loops; other site 355276000366 ABC-ATPase subunit interface; other site 355276000367 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 355276000368 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 355276000369 dimer interface [polypeptide binding]; other site 355276000370 conserved gate region; other site 355276000371 putative PBP binding loops; other site 355276000372 ABC-ATPase subunit interface; other site 355276000373 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 355276000374 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 355276000375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000376 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 355276000377 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 355276000378 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 355276000379 active site 355276000380 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 355276000381 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 355276000382 active site 355276000383 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 355276000384 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 355276000385 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 355276000386 dimer interface [polypeptide binding]; other site 355276000387 motif 1; other site 355276000388 active site 355276000389 motif 2; other site 355276000390 motif 3; other site 355276000391 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355276000392 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 355276000393 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355276000394 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355276000395 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 355276000396 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355276000397 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355276000398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276000399 Walker A/P-loop; other site 355276000400 ATP binding site [chemical binding]; other site 355276000401 Q-loop/lid; other site 355276000402 ABC transporter signature motif; other site 355276000403 Walker B; other site 355276000404 D-loop; other site 355276000405 H-loop/switch region; other site 355276000406 Acyl transferase domain; Region: Acyl_transf_1; cl08282 355276000407 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 355276000408 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 355276000409 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 355276000410 ANP binding site [chemical binding]; other site 355276000411 Substrate Binding Site II [chemical binding]; other site 355276000412 Substrate Binding Site I [chemical binding]; other site 355276000413 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 355276000414 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 355276000415 active site 355276000416 (T/H)XGH motif; other site 355276000417 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 355276000418 active site 355276000419 multimer interface [polypeptide binding]; other site 355276000420 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 355276000421 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355276000422 active site 355276000423 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276000424 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355276000425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000426 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355276000427 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355276000428 Helix-turn-helix domains; Region: HTH; cl00088 355276000429 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 355276000430 Uncharacterized conserved protein [Function unknown]; Region: COG0585 355276000431 active site 355276000432 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 355276000433 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 355276000434 active site 355276000435 catalytic tetrad [active] 355276000436 TPR repeat; Region: TPR_11; pfam13414 355276000437 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 355276000438 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 355276000439 binding surface 355276000440 TPR motif; other site 355276000441 TPR repeat; Region: TPR_11; pfam13414 355276000442 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276000443 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276000444 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 355276000445 putative heme binding pocket [chemical binding]; other site 355276000446 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 355276000447 anti sigma factor interaction site; other site 355276000448 regulatory phosphorylation site [posttranslational modification]; other site 355276000449 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 355276000450 active site 355276000451 dimerization interface [polypeptide binding]; other site 355276000452 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 355276000453 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 355276000454 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 355276000455 ABC transporter; Region: ABC_tran_2; pfam12848 355276000456 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 355276000457 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355276000458 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276000459 ligand binding site [chemical binding]; other site 355276000460 Sulfatase; Region: Sulfatase; cl10460 355276000461 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 355276000462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000465 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276000466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276000467 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 355276000468 DNA binding residues [nucleotide binding] 355276000469 FecR protein; Region: FecR; pfam04773 355276000470 DoxX; Region: DoxX; cl00976 355276000471 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355276000472 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276000473 Walker A/P-loop; other site 355276000474 ATP binding site [chemical binding]; other site 355276000475 Q-loop/lid; other site 355276000476 ABC transporter signature motif; other site 355276000477 Walker B; other site 355276000478 D-loop; other site 355276000479 H-loop/switch region; other site 355276000480 ABC transporter; Region: ABC_tran_2; pfam12848 355276000481 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 355276000482 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 355276000483 active site residue [active] 355276000484 putative acyltransferase; Provisional; Region: PRK05790 355276000485 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 355276000486 dimer interface [polypeptide binding]; other site 355276000487 active site 355276000488 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276000489 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276000490 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276000491 active site 355276000492 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 355276000493 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 355276000494 chorismate binding enzyme; Region: Chorismate_bind; cl10555 355276000495 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 355276000496 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 355276000497 glutamine binding [chemical binding]; other site 355276000498 catalytic triad [active] 355276000499 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 355276000500 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355276000501 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 355276000502 Walker A/P-loop; other site 355276000503 ATP binding site [chemical binding]; other site 355276000504 Q-loop/lid; other site 355276000505 ABC transporter signature motif; other site 355276000506 Walker B; other site 355276000507 D-loop; other site 355276000508 H-loop/switch region; other site 355276000509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276000510 active site 355276000511 phosphorylation site [posttranslational modification] 355276000512 intermolecular recognition site; other site 355276000513 HEAT repeats; Region: HEAT_2; pfam13646 355276000514 HEAT repeats; Region: HEAT_2; pfam13646 355276000515 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 355276000516 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 355276000517 HflX GTPase family; Region: HflX; cd01878 355276000518 G1 box; other site 355276000519 GTP/Mg2+ binding site [chemical binding]; other site 355276000520 Switch I region; other site 355276000521 G2 box; other site 355276000522 G3 box; other site 355276000523 Switch II region; other site 355276000524 G4 box; other site 355276000525 G5 box; other site 355276000526 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 355276000527 anti sigma factor interaction site; other site 355276000528 regulatory phosphorylation site [posttranslational modification]; other site 355276000529 homoserine dehydrogenase; Provisional; Region: PRK06349 355276000530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000531 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 355276000532 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 355276000533 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 355276000534 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 355276000535 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 355276000536 active site 355276000537 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276000538 Hypothetical patatin similar to WS1459 of Wolinella succinogenes; Region: Pat_hypo_W_succinogenes_WS1459_like; cd07210 355276000539 active site 355276000540 nucleophile elbow; other site 355276000541 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 355276000542 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276000543 ligand binding site [chemical binding]; other site 355276000544 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 355276000545 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276000546 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 355276000547 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 355276000548 Active Sites [active] 355276000549 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 355276000550 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 355276000551 Active Sites [active] 355276000552 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 355276000553 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 355276000554 CysD dimerization site [polypeptide binding]; other site 355276000555 G1 box; other site 355276000556 putative GEF interaction site [polypeptide binding]; other site 355276000557 GTP/Mg2+ binding site [chemical binding]; other site 355276000558 Switch I region; other site 355276000559 G2 box; other site 355276000560 G3 box; other site 355276000561 Switch II region; other site 355276000562 G4 box; other site 355276000563 G5 box; other site 355276000564 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 355276000565 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 355276000566 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276000567 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276000568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000569 sulfite reductase subunit beta; Provisional; Region: PRK13504 355276000570 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355276000571 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 355276000572 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 355276000573 Strictosidine synthase; Region: Str_synth; pfam03088 355276000574 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 355276000575 putative peptidoglycan binding site; other site 355276000576 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276000577 CAAX protease self-immunity; Region: Abi; cl00558 355276000578 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 355276000579 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 355276000580 Cl- selectivity filter; other site 355276000581 Cl- binding residues [ion binding]; other site 355276000582 pore gating glutamate residue; other site 355276000583 dimer interface [polypeptide binding]; other site 355276000584 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 355276000585 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 355276000586 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 355276000587 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 355276000588 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 355276000589 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 355276000590 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 355276000591 metal ion-dependent adhesion site (MIDAS); other site 355276000592 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 355276000593 catalytic core [active] 355276000594 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 355276000595 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 355276000596 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 355276000597 putative dimer interface [polypeptide binding]; other site 355276000598 active site pocket [active] 355276000599 putative cataytic base [active] 355276000600 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 355276000601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000602 TopoisomeraseII; Region: TOP2c; smart00433 355276000603 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276000604 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 355276000605 ATP binding site [chemical binding]; other site 355276000606 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 355276000607 active site 355276000608 putative metal-binding site [ion binding]; other site 355276000609 DNA Topoisomerase IV; Region: TOP4c; smart00434 355276000610 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 355276000611 CAP-like domain; other site 355276000612 active site 355276000613 primary dimer interface [polypeptide binding]; other site 355276000614 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 355276000615 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 355276000616 HIGH motif; other site 355276000617 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 355276000618 active site 355276000619 KMSKS motif; other site 355276000620 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355276000621 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 355276000622 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 355276000623 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 355276000624 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 355276000625 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 355276000626 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 355276000627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276000628 homodimer interface [polypeptide binding]; other site 355276000629 catalytic residue [active] 355276000630 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 355276000631 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 355276000632 PAS domain S-box; Region: sensory_box; TIGR00229 355276000633 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276000634 putative active site [active] 355276000635 heme pocket [chemical binding]; other site 355276000636 PAS domain S-box; Region: sensory_box; TIGR00229 355276000637 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276000638 putative active site [active] 355276000639 heme pocket [chemical binding]; other site 355276000640 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 355276000641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276000642 ATP binding site [chemical binding]; other site 355276000643 Mg2+ binding site [ion binding]; other site 355276000644 G-X-G motif; other site 355276000645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276000646 Response regulator receiver domain; Region: Response_reg; pfam00072 355276000647 active site 355276000648 phosphorylation site [posttranslational modification] 355276000649 intermolecular recognition site; other site 355276000650 dimerization interface [polypeptide binding]; other site 355276000651 isocitrate dehydrogenase; Validated; Region: PRK09222 355276000652 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 355276000653 UbiA prenyltransferase family; Region: UbiA; cl00337 355276000654 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 355276000655 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 355276000656 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 355276000657 Cu(I) binding site [ion binding]; other site 355276000658 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 355276000659 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355276000660 Cytochrome c; Region: Cytochrom_C; cl11414 355276000661 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 355276000662 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 355276000663 D-pathway; other site 355276000664 Low-spin heme binding site [chemical binding]; other site 355276000665 Putative water exit pathway; other site 355276000666 Binuclear center (active site) [active] 355276000667 K-pathway; other site 355276000668 Putative proton exit pathway; other site 355276000669 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 355276000670 Subunit I/III interface [polypeptide binding]; other site 355276000671 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 355276000672 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 355276000673 putative active site [active] 355276000674 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 355276000675 active site 355276000676 substrate-binding site [chemical binding]; other site 355276000677 metal-binding site [ion binding] 355276000678 ATP binding site [chemical binding]; other site 355276000679 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 355276000680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355276000681 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355276000682 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 355276000683 P-loop; other site 355276000684 Magnesium ion binding site [ion binding]; other site 355276000685 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 355276000686 Magnesium ion binding site [ion binding]; other site 355276000687 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 355276000688 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 355276000689 GatB domain; Region: GatB_Yqey; cl11497 355276000690 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 355276000691 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 355276000692 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 355276000693 generic binding surface I; other site 355276000694 generic binding surface II; other site 355276000695 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276000696 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276000697 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276000698 CHAT domain; Region: CHAT; pfam12770 355276000699 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355276000700 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355276000701 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355276000702 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 355276000703 Walker A/P-loop; other site 355276000704 ATP binding site [chemical binding]; other site 355276000705 Q-loop/lid; other site 355276000706 ABC transporter signature motif; other site 355276000707 Walker B; other site 355276000708 D-loop; other site 355276000709 H-loop/switch region; other site 355276000710 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 355276000711 phosphagen binding site; other site 355276000712 Clp protease ATP binding subunit; Region: clpC; CHL00095 355276000713 Clp amino terminal domain; Region: Clp_N; pfam02861 355276000714 Clp amino terminal domain; Region: Clp_N; pfam02861 355276000715 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 355276000716 Walker A motif; other site 355276000717 ATP binding site [chemical binding]; other site 355276000718 Walker B motif; other site 355276000719 arginine finger; other site 355276000720 UvrB/uvrC motif; Region: UVR; pfam02151 355276000721 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 355276000722 Walker A motif; other site 355276000723 ATP binding site [chemical binding]; other site 355276000724 Walker B motif; other site 355276000725 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355276000726 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276000727 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 355276000728 binding surface 355276000729 TPR motif; other site 355276000730 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355276000731 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 355276000732 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 355276000733 FeS/SAM binding site; other site 355276000734 Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may...; Region: Band_7_prohibitin; cd03401 355276000735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000736 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 355276000737 binding surface 355276000738 TPR motif; other site 355276000739 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 355276000740 binding surface 355276000741 TPR motif; other site 355276000742 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276000743 Sulfatase; Region: Sulfatase; cl10460 355276000744 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 355276000745 TPR motif; other site 355276000746 binding surface 355276000747 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276000748 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 355276000749 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 355276000750 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 355276000751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276000752 catalytic residue [active] 355276000753 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 355276000754 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 355276000755 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 355276000756 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 355276000757 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 355276000758 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355276000759 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12624 355276000760 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 355276000761 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 355276000762 anti sigma factor interaction site; other site 355276000763 regulatory phosphorylation site [posttranslational modification]; other site 355276000764 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276000765 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 355276000766 binding surface 355276000767 TPR motif; other site 355276000768 Fatty acid desaturase; Region: FA_desaturase; pfam00487 355276000769 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; cd01060 355276000770 putative di-iron ligands [ion binding]; other site 355276000771 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276000772 Protein of unknown function (DUF454); Region: DUF454; cl01063 355276000773 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 355276000774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000775 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000776 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000777 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 355276000778 dimer interface [polypeptide binding]; other site 355276000779 phosphorylation site [posttranslational modification] 355276000780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276000781 ATP binding site [chemical binding]; other site 355276000782 Mg2+ binding site [ion binding]; other site 355276000783 G-X-G motif; other site 355276000784 Response regulator receiver domain; Region: Response_reg; pfam00072 355276000785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276000786 active site 355276000787 phosphorylation site [posttranslational modification] 355276000788 intermolecular recognition site; other site 355276000789 dimerization interface [polypeptide binding]; other site 355276000790 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 355276000791 glycine dehydrogenase; Provisional; Region: PRK05367 355276000792 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 355276000793 tetramer interface [polypeptide binding]; other site 355276000794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276000795 catalytic residue [active] 355276000796 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 355276000797 tetramer interface [polypeptide binding]; other site 355276000798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276000799 catalytic residue [active] 355276000800 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 355276000801 lipoyl attachment site [posttranslational modification]; other site 355276000802 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 355276000803 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 355276000804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000805 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000806 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000807 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 355276000808 putative hydrophobic ligand binding site [chemical binding]; other site 355276000809 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 355276000810 putative DNA binding site [nucleotide binding]; other site 355276000811 putative Zn2+ binding site [ion binding]; other site 355276000812 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 355276000813 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 355276000814 active site 355276000815 catalytic site [active] 355276000816 metal binding site [ion binding]; metal-binding site 355276000817 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 355276000818 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 355276000819 TPR motif; other site 355276000820 TPR repeat; Region: TPR_11; pfam13414 355276000821 binding surface 355276000822 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 355276000823 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 355276000824 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 355276000825 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 355276000826 Ligand Binding Site [chemical binding]; other site 355276000827 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 355276000828 active site 355276000829 Kelch motif; Region: Kelch_1; cl02701 355276000830 Kelch motif; Region: Kelch_1; cl02701 355276000831 Kelch motif; Region: Kelch_1; cl02701 355276000832 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 355276000833 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 355276000834 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 355276000835 active site 355276000836 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 355276000837 Fe-S cluster binding site [ion binding]; other site 355276000838 active site 355276000839 acyl-CoA synthetase; Validated; Region: PRK07868 355276000840 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276000841 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 355276000842 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 355276000843 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 355276000844 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 355276000845 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276000846 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 355276000847 FAD binding site [chemical binding]; other site 355276000848 substrate binding site [chemical binding]; other site 355276000849 catalytic residues [active] 355276000850 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276000851 PAS domain; Region: PAS_9; pfam13426 355276000852 putative active site [active] 355276000853 heme pocket [chemical binding]; other site 355276000854 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355276000855 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 355276000856 dimer interface [polypeptide binding]; other site 355276000857 phosphorylation site [posttranslational modification] 355276000858 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276000859 ATP binding site [chemical binding]; other site 355276000860 Mg2+ binding site [ion binding]; other site 355276000861 G-X-G motif; other site 355276000862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000863 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000864 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000865 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355276000866 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 355276000867 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 355276000868 Integrase core domain; Region: rve; cl01316 355276000869 Integrase core domain; Region: rve_3; cl15866 355276000870 Integrase core domain; Region: rve; cl01316 355276000871 Integrase core domain; Region: rve_3; cl15866 355276000872 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 355276000873 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 355276000874 GDP-binding site [chemical binding]; other site 355276000875 ACT binding site; other site 355276000876 IMP binding site; other site 355276000877 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 355276000878 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 355276000879 dimer interface [polypeptide binding]; other site 355276000880 motif 1; other site 355276000881 active site 355276000882 motif 2; other site 355276000883 motif 3; other site 355276000884 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355276000885 putative acyl-acceptor binding pocket; other site 355276000886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276000887 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355276000888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000889 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000890 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000891 Pirin-related protein [General function prediction only]; Region: COG1741 355276000892 Cupin domain; Region: Cupin_2; cl09118 355276000893 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 355276000894 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355276000895 hydrophobic ligand binding site; other site 355276000896 GAF domain; Region: GAF; cl15785 355276000897 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 355276000898 dimer interface [polypeptide binding]; other site 355276000899 phosphorylation site [posttranslational modification] 355276000900 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276000901 ATP binding site [chemical binding]; other site 355276000902 Mg2+ binding site [ion binding]; other site 355276000903 G-X-G motif; other site 355276000904 Response regulator receiver domain; Region: Response_reg; pfam00072 355276000905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276000906 active site 355276000907 phosphorylation site [posttranslational modification] 355276000908 intermolecular recognition site; other site 355276000909 dimerization interface [polypeptide binding]; other site 355276000910 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 355276000911 dimer interface [polypeptide binding]; other site 355276000912 catalytic triad [active] 355276000913 peroxidatic and resolving cysteines [active] 355276000914 thiamine monophosphate kinase; Provisional; Region: PRK05731 355276000915 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 355276000916 ATP binding site [chemical binding]; other site 355276000917 dimerization interface [polypeptide binding]; other site 355276000918 YceI-like domain; Region: YceI; cl01001 355276000919 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 355276000920 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355276000921 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 355276000922 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 355276000923 Walker A/P-loop; other site 355276000924 ATP binding site [chemical binding]; other site 355276000925 Q-loop/lid; other site 355276000926 ABC transporter signature motif; other site 355276000927 Walker B; other site 355276000928 D-loop; other site 355276000929 H-loop/switch region; other site 355276000930 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 355276000931 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 355276000932 Transglycosylase; Region: Transgly; cl07896 355276000933 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 355276000934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276000935 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 355276000936 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 355276000937 S-adenosylmethionine binding site [chemical binding]; other site 355276000938 AAA domain; Region: AAA_33; pfam13671 355276000939 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355276000940 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276000941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276000942 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276000943 DoxX; Region: DoxX; cl00976 355276000944 elongation factor G; Reviewed; Region: PRK13351 355276000945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276000946 G1 box; other site 355276000947 GTP/Mg2+ binding site [chemical binding]; other site 355276000948 G2 box; other site 355276000949 Switch I region; other site 355276000950 G3 box; other site 355276000951 Switch II region; other site 355276000952 G4 box; other site 355276000953 G5 box; other site 355276000954 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 355276000955 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 355276000956 elongation factor Tu; Reviewed; Region: PRK00049 355276000957 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 355276000958 G1 box; other site 355276000959 GEF interaction site [polypeptide binding]; other site 355276000960 GTP/Mg2+ binding site [chemical binding]; other site 355276000961 Switch I region; other site 355276000962 G2 box; other site 355276000963 G3 box; other site 355276000964 Switch II region; other site 355276000965 G4 box; other site 355276000966 G5 box; other site 355276000967 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 355276000968 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 355276000969 Antibiotic Binding Site [chemical binding]; other site 355276000970 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 355276000971 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 355276000972 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 355276000973 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 355276000974 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 355276000975 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 355276000976 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 355276000977 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 355276000978 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 355276000979 putative translocon binding site; other site 355276000980 protein-rRNA interface [nucleotide binding]; other site 355276000981 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 355276000982 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 355276000983 G-X-X-G motif; other site 355276000984 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 355276000985 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 355276000986 23S rRNA interface [nucleotide binding]; other site 355276000987 5S rRNA interface [nucleotide binding]; other site 355276000988 putative antibiotic binding site [chemical binding]; other site 355276000989 L25 interface [polypeptide binding]; other site 355276000990 L27 interface [polypeptide binding]; other site 355276000991 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; cl09943 355276000992 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 355276000993 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 355276000994 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 355276000995 KOW motif; Region: KOW; cl00354 355276000996 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 355276000997 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 355276000998 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 355276000999 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 355276001000 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 355276001001 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 355276001002 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355276001003 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355276001004 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 355276001005 5S rRNA interface [nucleotide binding]; other site 355276001006 L27 interface [polypeptide binding]; other site 355276001007 23S rRNA interface [nucleotide binding]; other site 355276001008 L5 interface [polypeptide binding]; other site 355276001009 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 355276001010 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 355276001011 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 355276001012 23S rRNA binding site [nucleotide binding]; other site 355276001013 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 355276001014 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 355276001015 SecY translocase; Region: SecY; pfam00344 355276001016 adenylate kinase; Provisional; Region: PRK14528 355276001017 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 355276001018 AMP-binding site [chemical binding]; other site 355276001019 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 355276001020 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 355276001021 rRNA binding site [nucleotide binding]; other site 355276001022 predicted 30S ribosome binding site; other site 355276001023 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 355276001024 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 355276001025 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 355276001026 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 355276001027 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 355276001028 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 355276001029 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 355276001030 RNA binding surface [nucleotide binding]; other site 355276001031 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 355276001032 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 355276001033 alphaNTD - beta interaction site [polypeptide binding]; other site 355276001034 alphaNTD homodimer interface [polypeptide binding]; other site 355276001035 alphaNTD - beta' interaction site [polypeptide binding]; other site 355276001036 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 355276001037 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 355276001038 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 355276001039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001040 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 355276001041 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 355276001042 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 355276001043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276001044 Response regulator receiver domain; Region: Response_reg; pfam00072 355276001045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276001046 active site 355276001047 phosphorylation site [posttranslational modification] 355276001048 intermolecular recognition site; other site 355276001049 dimerization interface [polypeptide binding]; other site 355276001050 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001052 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001053 DoxX; Region: DoxX; cl00976 355276001054 elongation factor G; Reviewed; Region: PRK13351 355276001055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276001056 G1 box; other site 355276001057 GTP/Mg2+ binding site [chemical binding]; other site 355276001058 G2 box; other site 355276001059 Switch I region; other site 355276001060 G3 box; other site 355276001061 Switch II region; other site 355276001062 G4 box; other site 355276001063 G5 box; other site 355276001064 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 355276001065 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 355276001066 elongation factor Tu; Reviewed; Region: PRK00049 355276001067 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 355276001068 G1 box; other site 355276001069 GEF interaction site [polypeptide binding]; other site 355276001070 GTP/Mg2+ binding site [chemical binding]; other site 355276001071 Switch I region; other site 355276001072 G2 box; other site 355276001073 G3 box; other site 355276001074 Switch II region; other site 355276001075 G4 box; other site 355276001076 G5 box; other site 355276001077 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 355276001078 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 355276001079 Antibiotic Binding Site [chemical binding]; other site 355276001080 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 355276001081 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 355276001082 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 355276001083 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 355276001084 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 355276001085 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 355276001086 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 355276001087 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 355276001088 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 355276001089 putative translocon binding site; other site 355276001090 protein-rRNA interface [nucleotide binding]; other site 355276001091 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 355276001092 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 355276001093 G-X-X-G motif; other site 355276001094 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 355276001095 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 355276001096 23S rRNA interface [nucleotide binding]; other site 355276001097 5S rRNA interface [nucleotide binding]; other site 355276001098 putative antibiotic binding site [chemical binding]; other site 355276001099 L25 interface [polypeptide binding]; other site 355276001100 L27 interface [polypeptide binding]; other site 355276001101 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; cl09943 355276001102 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 355276001103 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 355276001104 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 355276001105 KOW motif; Region: KOW; cl00354 355276001106 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 355276001107 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 355276001108 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 355276001109 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 355276001110 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 355276001111 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 355276001112 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355276001113 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 355276001114 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 355276001115 5S rRNA interface [nucleotide binding]; other site 355276001116 L27 interface [polypeptide binding]; other site 355276001117 23S rRNA interface [nucleotide binding]; other site 355276001118 L5 interface [polypeptide binding]; other site 355276001119 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 355276001120 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 355276001121 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 355276001122 23S rRNA binding site [nucleotide binding]; other site 355276001123 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 355276001124 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 355276001125 SecY translocase; Region: SecY; pfam00344 355276001126 adenylate kinase; Provisional; Region: PRK14528 355276001127 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 355276001128 AMP-binding site [chemical binding]; other site 355276001129 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 355276001130 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 355276001131 rRNA binding site [nucleotide binding]; other site 355276001132 predicted 30S ribosome binding site; other site 355276001133 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 355276001134 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 355276001135 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 355276001136 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 355276001137 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 355276001138 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 355276001139 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 355276001140 RNA binding surface [nucleotide binding]; other site 355276001141 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 355276001142 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 355276001143 alphaNTD - beta interaction site [polypeptide binding]; other site 355276001144 alphaNTD homodimer interface [polypeptide binding]; other site 355276001145 alphaNTD - beta' interaction site [polypeptide binding]; other site 355276001146 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 355276001147 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 355276001148 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 355276001149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001150 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 355276001151 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 355276001152 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 355276001153 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276001154 Response regulator receiver domain; Region: Response_reg; pfam00072 355276001155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276001156 active site 355276001157 phosphorylation site [posttranslational modification] 355276001158 intermolecular recognition site; other site 355276001159 dimerization interface [polypeptide binding]; other site 355276001160 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001161 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001162 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001163 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001164 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001165 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001166 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 355276001167 putative hydrophobic ligand binding site [chemical binding]; other site 355276001168 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 355276001169 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 355276001170 substrate binding pocket [chemical binding]; other site 355276001171 chain length determination region; other site 355276001172 substrate-Mg2+ binding site; other site 355276001173 catalytic residues [active] 355276001174 aspartate-rich region 1; other site 355276001175 active site lid residues [active] 355276001176 aspartate-rich region 2; other site 355276001177 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 355276001178 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 355276001179 TPP-binding site [chemical binding]; other site 355276001180 dimer interface [polypeptide binding]; other site 355276001181 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 355276001182 Transglycosylase; Region: Transgly; cl07896 355276001183 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276001184 Protein of unknown function, DUF399; Region: DUF399; cl01139 355276001185 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 355276001186 catalytic residues [active] 355276001187 dimer interface [polypeptide binding]; other site 355276001188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001189 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001190 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001191 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 355276001192 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 355276001193 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 355276001194 putative NAD(P) binding site [chemical binding]; other site 355276001195 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 355276001196 HSP70 interaction site [polypeptide binding]; other site 355276001197 Carbon starvation protein CstA; Region: CstA; pfam02554 355276001198 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 355276001199 Carbon starvation protein CstA; Region: CstA; pfam02554 355276001200 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 355276001201 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 355276001202 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 355276001203 nudix motif; other site 355276001204 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 355276001205 FlgD Ig-like domain; Region: FlgD_ig; cl15790 355276001206 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276001207 ligand binding site [chemical binding]; other site 355276001208 PilZ domain; Region: PilZ; cl01260 355276001209 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 355276001210 spermidine synthase; Provisional; Region: PRK03612 355276001211 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276001212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001213 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001214 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001215 EVE domain; Region: EVE; cl00728 355276001216 FtsH Extracellular; Region: FtsH_ext; pfam06480 355276001217 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 355276001218 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 355276001219 Walker A motif; other site 355276001220 ATP binding site [chemical binding]; other site 355276001221 Walker B motif; other site 355276001222 arginine finger; other site 355276001223 Peptidase family M41; Region: Peptidase_M41; pfam01434 355276001224 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 355276001225 putative active site [active] 355276001226 catalytic residue [active] 355276001227 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 355276001228 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 355276001229 5S rRNA interface [nucleotide binding]; other site 355276001230 CTC domain interface [polypeptide binding]; other site 355276001231 L16 interface [polypeptide binding]; other site 355276001232 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 355276001233 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 355276001234 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355276001235 active site 355276001236 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 355276001237 Substrate binding site; other site 355276001238 Mg++ binding site; other site 355276001239 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14613 355276001240 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 355276001241 Predicted transcriptional regulator [Transcription]; Region: COG2378 355276001242 WYL domain; Region: WYL; cl14852 355276001243 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355276001244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001245 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001246 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001247 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 355276001248 active site 355276001249 metal binding site [ion binding]; metal-binding site 355276001250 helicase 45; Provisional; Region: PTZ00424 355276001251 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 355276001252 ATP binding site [chemical binding]; other site 355276001253 Mg++ binding site [ion binding]; other site 355276001254 motif III; other site 355276001255 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 355276001256 nucleotide binding region [chemical binding]; other site 355276001257 ATP-binding site [chemical binding]; other site 355276001258 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 355276001259 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 355276001260 S-adenosylmethionine binding site [chemical binding]; other site 355276001261 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 355276001262 homotrimer interaction site [polypeptide binding]; other site 355276001263 putative active site [active] 355276001264 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276001265 Predicted transcriptional regulator [Transcription]; Region: COG2378 355276001266 WYL domain; Region: WYL; cl14852 355276001267 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276001268 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276001269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001270 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001271 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001272 DNA polymerase I; Provisional; Region: PRK05755 355276001273 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 355276001274 active site 355276001275 metal binding site 1 [ion binding]; metal-binding site 355276001276 putative 5' ssDNA interaction site; other site 355276001277 metal binding site 3; metal-binding site 355276001278 metal binding site 2 [ion binding]; metal-binding site 355276001279 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 355276001280 putative DNA binding site [nucleotide binding]; other site 355276001281 putative metal binding site [ion binding]; other site 355276001282 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 355276001283 active site 355276001284 catalytic site [active] 355276001285 substrate binding site [chemical binding]; other site 355276001286 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 355276001287 active site 355276001288 DNA binding site [nucleotide binding] 355276001289 catalytic site [active] 355276001290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276001291 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 355276001292 putative ADP-binding pocket [chemical binding]; other site 355276001293 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 355276001294 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 355276001295 putative active site [active] 355276001296 putative dimer interface [polypeptide binding]; other site 355276001297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001298 NAD(P) binding site [chemical binding]; other site 355276001299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001300 hypothetical protein; Provisional; Region: PRK10318 355276001301 Predicted membrane protein [Function unknown]; Region: COG4270 355276001302 flagellar motor protein MotS; Reviewed; Region: PRK06742 355276001303 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276001304 ligand binding site [chemical binding]; other site 355276001305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276001306 Helix-turn-helix domains; Region: HTH; cl00088 355276001307 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 355276001308 Catalytic site [active] 355276001309 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 355276001310 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 355276001311 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 355276001312 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 355276001313 Short C-terminal domain; Region: SHOCT; cl01373 355276001314 threonine synthase; Validated; Region: PRK06260 355276001315 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 355276001316 homodimer interface [polypeptide binding]; other site 355276001317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276001318 catalytic residue [active] 355276001319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001320 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001321 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001323 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001324 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001325 KWG Leptospira; Region: KWG; pfam07656 355276001326 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 355276001327 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 355276001328 HIGH motif; other site 355276001329 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 355276001330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355276001331 active site 355276001332 KMSKS motif; other site 355276001333 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 355276001334 tRNA binding surface [nucleotide binding]; other site 355276001335 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355276001336 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 355276001337 Walker A/P-loop; other site 355276001338 ATP binding site [chemical binding]; other site 355276001339 Q-loop/lid; other site 355276001340 ABC transporter signature motif; other site 355276001341 Walker B; other site 355276001342 D-loop; other site 355276001343 H-loop/switch region; other site 355276001344 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355276001345 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 355276001346 FtsX-like permease family; Region: FtsX; cl15850 355276001347 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 355276001348 Citrate synthase; Region: Citrate_synt; pfam00285 355276001349 oxalacetate binding site [chemical binding]; other site 355276001350 citrylCoA binding site [chemical binding]; other site 355276001351 coenzyme A binding site [chemical binding]; other site 355276001352 catalytic triad [active] 355276001353 HEPN domain; Region: HEPN; cl00824 355276001354 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 355276001355 active site 355276001356 NTP binding site [chemical binding]; other site 355276001357 metal binding triad [ion binding]; metal-binding site 355276001358 antibiotic binding site [chemical binding]; other site 355276001359 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276001360 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 355276001361 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355276001362 Beta-propeller repeat; Region: SBBP; pfam06739 355276001363 Beta-propeller repeat; Region: SBBP; pfam06739 355276001364 Beta-propeller repeat; Region: SBBP; pfam06739 355276001365 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 355276001366 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 355276001367 Helix-turn-helix domains; Region: HTH; cl00088 355276001368 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 355276001369 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276001370 active site 355276001371 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 355276001372 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 355276001373 active site 355276001374 HIGH motif; other site 355276001375 KMSKS motif; other site 355276001376 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 355276001377 tRNA binding surface [nucleotide binding]; other site 355276001378 anticodon binding site; other site 355276001379 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 355276001380 putative tRNA-binding site [nucleotide binding]; other site 355276001381 dimer interface [polypeptide binding]; other site 355276001382 tellurium resistance terB-like protein; Region: terB_like; cl11965 355276001383 metal binding site [ion binding]; metal-binding site 355276001384 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 355276001385 HEAT repeats; Region: HEAT_2; pfam13646 355276001386 HEAT repeats; Region: HEAT_2; pfam13646 355276001387 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 355276001388 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 355276001389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001390 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001391 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001392 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355276001393 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355276001394 tandem repeat interface [polypeptide binding]; other site 355276001395 oligomer interface [polypeptide binding]; other site 355276001396 active site residues [active] 355276001397 Survival protein SurE; Region: SurE; cl00448 355276001398 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 355276001399 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 355276001400 binding surface 355276001401 TPR motif; other site 355276001402 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 355276001403 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 355276001404 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 355276001405 putative NAD(P) binding site [chemical binding]; other site 355276001406 putative active site [active] 355276001407 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355276001408 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 355276001409 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 355276001410 active site 355276001411 (T/H)XGH motif; other site 355276001412 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 355276001413 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 355276001414 putative catalytic cysteine [active] 355276001415 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 355276001416 nucleotide binding site [chemical binding]; other site 355276001417 homotetrameric interface [polypeptide binding]; other site 355276001418 putative phosphate binding site [ion binding]; other site 355276001419 putative allosteric binding site; other site 355276001420 GTPase CgtA; Reviewed; Region: obgE; PRK12299 355276001421 GTP1/OBG; Region: GTP1_OBG; pfam01018 355276001422 Obg GTPase; Region: Obg; cd01898 355276001423 G1 box; other site 355276001424 GTP/Mg2+ binding site [chemical binding]; other site 355276001425 Switch I region; other site 355276001426 G2 box; other site 355276001427 G3 box; other site 355276001428 Switch II region; other site 355276001429 G4 box; other site 355276001430 G5 box; other site 355276001431 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 355276001432 Protein of unknown function (DUF464); Region: DUF464; cl01080 355276001433 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 355276001434 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 355276001435 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 355276001436 putative NAD(P) binding site [chemical binding]; other site 355276001437 Fe-S metabolism associated domain; Region: SufE; cl00951 355276001438 putative single-stranded DNA-binding protein; Region: PHA01740 355276001439 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; cl02712 355276001440 amidase catalytic site [active] 355276001441 Zn binding residues [ion binding]; other site 355276001442 substrate binding site [chemical binding]; other site 355276001443 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 355276001444 amidase catalytic site [active] 355276001445 Zn binding residues [ion binding]; other site 355276001446 substrate binding site [chemical binding]; other site 355276001447 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 355276001448 homopentamer interface [polypeptide binding]; other site 355276001449 active site 355276001450 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 355276001451 putative RNA binding site [nucleotide binding]; other site 355276001452 TPR repeat; Region: TPR_11; pfam13414 355276001453 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 355276001454 binding surface 355276001455 TPR motif; other site 355276001456 TPR repeat; Region: TPR_11; pfam13414 355276001457 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 355276001458 binding surface 355276001459 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276001460 TPR motif; other site 355276001461 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 355276001462 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276001463 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 355276001464 binding surface 355276001465 TPR repeat; Region: TPR_11; pfam13414 355276001466 TPR motif; other site 355276001467 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 355276001468 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 355276001469 HEAT repeats; Region: HEAT_2; pfam13646 355276001470 HEAT repeats; Region: HEAT_2; pfam13646 355276001471 HEAT repeats; Region: HEAT_2; pfam13646 355276001472 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355276001473 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 355276001474 substrate binding site [chemical binding]; other site 355276001475 oxyanion hole (OAH) forming residues; other site 355276001476 trimer interface [polypeptide binding]; other site 355276001477 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 355276001478 structural tetrad; other site 355276001479 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 355276001480 OpgC protein; Region: OpgC_C; cl00792 355276001481 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355276001482 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 355276001483 ligand binding site [chemical binding]; other site 355276001484 flexible hinge region; other site 355276001485 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276001486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276001487 active site 355276001488 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 355276001489 putative active site [active] 355276001490 putative substrate binding site [chemical binding]; other site 355276001491 ATP binding site [chemical binding]; other site 355276001492 Phosphotransferase enzyme family; Region: APH; pfam01636 355276001493 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 355276001494 catalytic core [active] 355276001495 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 355276001496 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 355276001497 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 355276001498 dimer interface [polypeptide binding]; other site 355276001499 phosphorylation site [posttranslational modification] 355276001500 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 355276001501 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276001502 ATP binding site [chemical binding]; other site 355276001503 Mg2+ binding site [ion binding]; other site 355276001504 G-X-G motif; other site 355276001505 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 355276001506 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 355276001507 C-terminal domain interface [polypeptide binding]; other site 355276001508 GSH binding site (G-site) [chemical binding]; other site 355276001509 dimer interface [polypeptide binding]; other site 355276001510 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 355276001511 N-terminal domain interface [polypeptide binding]; other site 355276001512 putative dimer interface [polypeptide binding]; other site 355276001513 active site 355276001514 Outer membrane efflux protein; Region: OEP; pfam02321 355276001515 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 355276001516 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 355276001517 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 355276001518 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 355276001519 Protein of unknown function (DUF962); Region: DUF962; cl01879 355276001520 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 355276001521 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 355276001522 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 355276001523 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 355276001524 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 355276001525 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 355276001526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276001527 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 355276001528 Domain of unknown function (DUF389); Region: DUF389; cl00781 355276001529 FeS assembly ATPase SufC; Region: sufC; TIGR01978 355276001530 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 355276001531 Walker A/P-loop; other site 355276001532 ATP binding site [chemical binding]; other site 355276001533 Q-loop/lid; other site 355276001534 ABC transporter signature motif; other site 355276001535 Walker B; other site 355276001536 D-loop; other site 355276001537 H-loop/switch region; other site 355276001538 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 355276001539 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 355276001540 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 355276001541 [2Fe-2S] cluster binding site [ion binding]; other site 355276001542 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 355276001543 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 355276001544 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276001545 catalytic residue [active] 355276001546 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 355276001547 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 355276001548 trimerization site [polypeptide binding]; other site 355276001549 active site 355276001550 Domain of unknown function DUF59; Region: DUF59; cl00941 355276001551 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 355276001552 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 355276001553 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 355276001554 active site residue [active] 355276001555 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355276001556 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 355276001557 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 355276001558 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 355276001559 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 355276001560 active site 355276001561 HIGH motif; other site 355276001562 dimer interface [polypeptide binding]; other site 355276001563 KMSKS motif; other site 355276001564 Protein of unknown function (DUF1168); Region: DUF1168; pfam06658 355276001565 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 355276001566 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 355276001567 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 355276001568 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 355276001569 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 355276001570 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 355276001571 Ligand binding site [chemical binding]; other site 355276001572 Electron transfer flavoprotein domain; Region: ETF; pfam01012 355276001573 isovaleryl-CoA dehydrogenase; Provisional; Region: PTZ00461 355276001574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276001575 active site 355276001576 Helix-turn-helix domain; Region: HTH_18; pfam12833 355276001577 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 355276001578 Transposase domain (DUF772); Region: DUF772; cl15789 355276001579 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276001580 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276001581 active site 355276001582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001583 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001584 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001585 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355276001586 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 355276001587 HEAT repeats; Region: HEAT_2; pfam13646 355276001588 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 355276001589 substrate binding site [chemical binding]; other site 355276001590 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 355276001591 substrate binding pocket [chemical binding]; other site 355276001592 chain length determination region; other site 355276001593 substrate-Mg2+ binding site; other site 355276001594 catalytic residues [active] 355276001595 aspartate-rich region 1; other site 355276001596 active site lid residues [active] 355276001597 aspartate-rich region 2; other site 355276001598 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 355276001599 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 355276001600 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276001601 OpgC protein; Region: OpgC_C; cl00792 355276001602 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355276001603 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 355276001604 23S rRNA interface [nucleotide binding]; other site 355276001605 L3 interface [polypeptide binding]; other site 355276001606 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 355276001607 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 355276001608 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 355276001609 motif 1; other site 355276001610 active site 355276001611 motif 2; other site 355276001612 motif 3; other site 355276001613 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 355276001614 DHHA1 domain; Region: DHHA1; pfam02272 355276001615 Protein of unknown function (DUF520); Region: DUF520; cl00723 355276001616 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 355276001617 putative active site [active] 355276001618 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355276001619 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355276001620 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355276001621 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355276001622 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355276001623 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276001624 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 355276001625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001626 Domain of unknown function (DUF955); Region: DUF955; cl01076 355276001627 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 355276001628 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355276001629 Cytochrome c; Region: Cytochrom_C; cl11414 355276001630 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 355276001631 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355276001632 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 355276001633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276001634 dimer interface [polypeptide binding]; other site 355276001635 putative CheW interface [polypeptide binding]; other site 355276001636 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 355276001637 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 355276001638 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 355276001639 putative homodimer interface [polypeptide binding]; other site 355276001640 KOW motif; Region: KOW; cl00354 355276001641 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 355276001642 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 355276001643 23S rRNA interface [nucleotide binding]; other site 355276001644 L7/L12 interface [polypeptide binding]; other site 355276001645 putative thiostrepton binding site; other site 355276001646 L25 interface [polypeptide binding]; other site 355276001647 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 355276001648 mRNA/rRNA interface [nucleotide binding]; other site 355276001649 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 355276001650 23S rRNA interface [nucleotide binding]; other site 355276001651 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 355276001652 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 355276001653 core dimer interface [polypeptide binding]; other site 355276001654 peripheral dimer interface [polypeptide binding]; other site 355276001655 L10 interface [polypeptide binding]; other site 355276001656 L11 interface [polypeptide binding]; other site 355276001657 putative EF-Tu interaction site [polypeptide binding]; other site 355276001658 putative EF-G interaction site [polypeptide binding]; other site 355276001659 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 355276001660 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 355276001661 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 355276001662 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 355276001663 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 355276001664 RPB10 interaction site [polypeptide binding]; other site 355276001665 RPB1 interaction site [polypeptide binding]; other site 355276001666 RPB11 interaction site [polypeptide binding]; other site 355276001667 RPB3 interaction site [polypeptide binding]; other site 355276001668 RPB12 interaction site [polypeptide binding]; other site 355276001669 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 355276001670 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 355276001671 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 355276001672 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 355276001673 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 355276001674 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 355276001675 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 355276001676 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 355276001677 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 355276001678 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 355276001679 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 355276001680 DNA binding site [nucleotide binding] 355276001681 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 355276001682 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 355276001683 S17 interaction site [polypeptide binding]; other site 355276001684 S8 interaction site; other site 355276001685 16S rRNA interaction site [nucleotide binding]; other site 355276001686 streptomycin interaction site [chemical binding]; other site 355276001687 23S rRNA interaction site [nucleotide binding]; other site 355276001688 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 355276001689 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 355276001690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001691 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001692 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001693 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 355276001694 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 355276001695 putative NAD(P) binding site [chemical binding]; other site 355276001696 catalytic Zn binding site [ion binding]; other site 355276001697 structural Zn binding site [ion binding]; other site 355276001698 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 355276001699 CoenzymeA binding site [chemical binding]; other site 355276001700 subunit interaction site [polypeptide binding]; other site 355276001701 PHB binding site; other site 355276001702 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 355276001703 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 355276001704 Pectinacetylesterase; Region: PAE; pfam03283 355276001705 Rhomboid family; Region: Rhomboid; cl11446 355276001706 excinuclease ABC subunit B; Provisional; Region: PRK05298 355276001707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276001708 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 355276001709 Walker A/P-loop; other site 355276001710 ATP binding site [chemical binding]; other site 355276001711 ATP binding site [chemical binding]; other site 355276001712 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 355276001713 nucleotide binding region [chemical binding]; other site 355276001714 ATP-binding site [chemical binding]; other site 355276001715 Ultra-violet resistance protein B; Region: UvrB; pfam12344 355276001716 UvrB/uvrC motif; Region: UVR; pfam02151 355276001717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001718 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 355276001719 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355276001720 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 355276001721 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 355276001722 RNA binding site [nucleotide binding]; other site 355276001723 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 355276001724 RNA binding site [nucleotide binding]; other site 355276001725 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 355276001726 RNA binding site [nucleotide binding]; other site 355276001727 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 355276001728 putative metal binding site; other site 355276001729 Imelysin; Region: Peptidase_M75; cl09159 355276001730 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 355276001731 Imelysin; Region: Peptidase_M75; cl09159 355276001732 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 355276001733 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 355276001734 N-terminal plug; other site 355276001735 ligand-binding site [chemical binding]; other site 355276001736 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 355276001737 Predicted amidohydrolase [General function prediction only]; Region: COG0388 355276001738 putative active site [active] 355276001739 catalytic triad [active] 355276001740 putative dimer interface [polypeptide binding]; other site 355276001741 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355276001742 FAD binding domain; Region: FAD_binding_4; pfam01565 355276001743 polyphosphate kinase; Provisional; Region: PRK05443 355276001744 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 355276001745 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 355276001746 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 355276001747 putative domain interface [polypeptide binding]; other site 355276001748 putative active site [active] 355276001749 catalytic site [active] 355276001750 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 355276001751 putative domain interface [polypeptide binding]; other site 355276001752 putative active site [active] 355276001753 catalytic site [active] 355276001754 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 355276001755 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 355276001756 DXD motif; other site 355276001757 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 355276001758 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 355276001759 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 355276001760 active site 355276001761 phosphorylation site [posttranslational modification] 355276001762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 355276001763 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 355276001764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 355276001765 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355276001766 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355276001767 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 355276001768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355276001769 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 355276001770 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 355276001771 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 355276001772 shikimate binding site; other site 355276001773 NAD(P) binding site [chemical binding]; other site 355276001774 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355276001775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001776 NAD(P) binding site [chemical binding]; other site 355276001777 active site 355276001778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001779 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001780 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276001782 Helix-turn-helix domains; Region: HTH; cl00088 355276001783 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 355276001784 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 355276001785 active site 355276001786 catalytic residues [active] 355276001787 metal binding site [ion binding]; metal-binding site 355276001788 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 355276001789 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 355276001790 catalytic residues [active] 355276001791 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355276001792 GAF domain; Region: GAF; cl15785 355276001793 GAF domain; Region: GAF; cl15785 355276001794 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355276001795 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355276001797 MORN repeat; Region: MORN; cl14787 355276001798 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355276001799 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 355276001800 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 355276001801 catalytic residues [active] 355276001802 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 355276001803 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 355276001804 Zn binding site [ion binding]; other site 355276001805 enterobactin exporter EntS; Provisional; Region: PRK10489 355276001806 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 355276001807 dimer interface [polypeptide binding]; other site 355276001808 ADP-ribose binding site [chemical binding]; other site 355276001809 active site 355276001810 nudix motif; other site 355276001811 metal binding site [ion binding]; metal-binding site 355276001812 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276001813 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 355276001814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276001815 Family description; Region: UvrD_C_2; cl15862 355276001816 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 355276001817 binding surface 355276001818 TPR motif; other site 355276001819 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 355276001820 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 355276001821 Ligand binding site; other site 355276001822 Putative Catalytic site; other site 355276001823 DXD motif; other site 355276001824 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 355276001825 anti sigma factor interaction site; other site 355276001826 regulatory phosphorylation site [posttranslational modification]; other site 355276001827 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 355276001828 translocation protein TolB; Provisional; Region: tolB; PRK01742 355276001829 TPR repeat; Region: TPR_11; pfam13414 355276001830 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 355276001831 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 355276001832 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 355276001833 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 355276001834 protein binding site [polypeptide binding]; other site 355276001835 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 355276001836 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 355276001837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276001838 homodimer interface [polypeptide binding]; other site 355276001839 catalytic residue [active] 355276001840 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 355276001841 FecR protein; Region: FecR; pfam04773 355276001842 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 355276001843 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 355276001844 dimerization interface [polypeptide binding]; other site 355276001845 putative ATP binding site [chemical binding]; other site 355276001846 PAS domain S-box; Region: sensory_box; TIGR00229 355276001847 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276001848 putative active site [active] 355276001849 heme pocket [chemical binding]; other site 355276001850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355276001851 metal binding site [ion binding]; metal-binding site 355276001852 active site 355276001853 I-site; other site 355276001854 pyruvate kinase; Provisional; Region: PRK05826 355276001855 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 355276001856 domain interfaces; other site 355276001857 active site 355276001858 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 355276001859 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 355276001860 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 355276001861 catalytic site [active] 355276001862 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 355276001863 putative active site [active] 355276001864 catalytic site [active] 355276001865 putative substrate binding site [chemical binding]; other site 355276001866 DNA repair protein RadA; Provisional; Region: PRK11823 355276001867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276001868 Walker A motif; other site 355276001869 ATP binding site [chemical binding]; other site 355276001870 Walker B motif; other site 355276001871 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 355276001872 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 355276001873 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 355276001874 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 355276001875 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 355276001876 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 355276001877 Bacterial SH3 domain; Region: SH3_3; cl02551 355276001878 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355276001879 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 355276001880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001881 CoA-ligase; Region: Ligase_CoA; cl02894 355276001882 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 355276001883 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276001884 CoA-ligase; Region: Ligase_CoA; cl02894 355276001885 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 355276001886 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 355276001887 dimerization interface [polypeptide binding]; other site 355276001888 ATP binding site [chemical binding]; other site 355276001889 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 355276001890 dimerization interface [polypeptide binding]; other site 355276001891 ATP binding site [chemical binding]; other site 355276001892 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 355276001893 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 355276001894 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355276001895 active site 355276001896 HIGH motif; other site 355276001897 nucleotide binding site [chemical binding]; other site 355276001898 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 355276001899 active site 355276001900 KMSKS motif; other site 355276001901 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 355276001902 tRNA binding surface [nucleotide binding]; other site 355276001903 anticodon binding site; other site 355276001904 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 355276001905 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 355276001906 anti sigma factor interaction site; other site 355276001907 regulatory phosphorylation site [posttranslational modification]; other site 355276001908 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 355276001909 active site 355276001910 catalytic triad [active] 355276001911 dimer interface [polypeptide binding]; other site 355276001912 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 355276001913 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276001914 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276001915 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 355276001916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276001917 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 355276001918 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 355276001919 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276001920 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 355276001921 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 355276001922 ligand binding site [chemical binding]; other site 355276001923 flexible hinge region; other site 355276001924 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 355276001925 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 355276001926 oligomeric interface; other site 355276001927 putative active site [active] 355276001928 homodimer interface [polypeptide binding]; other site 355276001929 EamA-like transporter family; Region: EamA; cl01037 355276001930 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355276001931 EamA-like transporter family; Region: EamA; cl01037 355276001932 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001933 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001934 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001935 bile acid transporter; Region: bass; TIGR00841 355276001936 Membrane transport protein; Region: Mem_trans; cl09117 355276001937 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 355276001938 putative acyl-acceptor binding pocket; other site 355276001939 Response regulator receiver domain; Region: Response_reg; pfam00072 355276001940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276001941 active site 355276001942 phosphorylation site [posttranslational modification] 355276001943 intermolecular recognition site; other site 355276001944 dimerization interface [polypeptide binding]; other site 355276001945 CHASE3 domain; Region: CHASE3; cl05000 355276001946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355276001947 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 355276001948 dimer interface [polypeptide binding]; other site 355276001949 phosphorylation site [posttranslational modification] 355276001950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276001951 ATP binding site [chemical binding]; other site 355276001952 Mg2+ binding site [ion binding]; other site 355276001953 G-X-G motif; other site 355276001954 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 355276001955 S-adenosylmethionine binding site [chemical binding]; other site 355276001956 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 355276001957 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 355276001958 putative active site [active] 355276001959 putative metal binding site [ion binding]; other site 355276001960 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276001961 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 355276001962 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 355276001963 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 355276001964 N-terminal plug; other site 355276001965 ligand-binding site [chemical binding]; other site 355276001966 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276001967 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 355276001968 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001970 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001971 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276001972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276001973 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276001974 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 355276001975 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355276001976 putative substrate translocation pore; other site 355276001977 Pirin-related protein [General function prediction only]; Region: COG1741 355276001978 Cupin domain; Region: Cupin_2; cl09118 355276001979 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 355276001980 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276001981 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 355276001982 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 355276001983 G1 box; other site 355276001984 putative GEF interaction site [polypeptide binding]; other site 355276001985 GTP/Mg2+ binding site [chemical binding]; other site 355276001986 Switch I region; other site 355276001987 G2 box; other site 355276001988 G3 box; other site 355276001989 Switch II region; other site 355276001990 G4 box; other site 355276001991 G5 box; other site 355276001992 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 355276001993 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 355276001994 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 355276001995 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14332 355276001996 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355276001997 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 355276001998 FeS/SAM binding site; other site 355276001999 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355276002000 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 355276002001 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 355276002002 active site 355276002003 dimer interfaces [polypeptide binding]; other site 355276002004 catalytic residues [active] 355276002005 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 355276002006 oligomeric interface; other site 355276002007 putative active site [active] 355276002008 homodimer interface [polypeptide binding]; other site 355276002009 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 355276002010 putative catalytic residues [active] 355276002011 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 355276002012 Integral membrane protein TerC family; Region: TerC; cl10468 355276002013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002014 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002015 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002016 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276002017 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 355276002018 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 355276002019 substrate binding site [chemical binding]; other site 355276002020 oxyanion hole (OAH) forming residues; other site 355276002021 trimer interface [polypeptide binding]; other site 355276002022 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 355276002023 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 355276002024 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276002025 PilZ domain; Region: PilZ; cl01260 355276002026 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 355276002027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276002028 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 355276002029 DNA binding residues [nucleotide binding] 355276002030 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 355276002031 Mg++ binding site [ion binding]; other site 355276002032 putative catalytic motif [active] 355276002033 putative substrate binding site [chemical binding]; other site 355276002034 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 355276002035 dihydrodipicolinate synthase; Region: dapA; TIGR00674 355276002036 dimer interface [polypeptide binding]; other site 355276002037 active site 355276002038 catalytic residue [active] 355276002039 dihydrodipicolinate reductase; Provisional; Region: PRK00048 355276002040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002041 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 355276002042 Uncharacterized conserved protein [Function unknown]; Region: COG1624 355276002043 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 355276002044 YbbR-like protein; Region: YbbR; pfam07949 355276002045 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 355276002046 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 355276002047 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355276002048 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 355276002049 rRNA interaction site [nucleotide binding]; other site 355276002050 S8 interaction site; other site 355276002051 putative laminin-1 binding site; other site 355276002052 elongation factor Ts; Reviewed; Region: tsf; PRK12332 355276002053 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 355276002054 Elongation factor TS; Region: EF_TS; pfam00889 355276002055 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 355276002056 putative nucleotide binding site [chemical binding]; other site 355276002057 uridine monophosphate binding site [chemical binding]; other site 355276002058 homohexameric interface [polypeptide binding]; other site 355276002059 ribosome recycling factor; Reviewed; Region: frr; PRK00083 355276002060 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 355276002061 hinge region; other site 355276002062 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 355276002063 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 355276002064 catalytic residue [active] 355276002065 putative FPP diphosphate binding site; other site 355276002066 putative FPP binding hydrophobic cleft; other site 355276002067 dimer interface [polypeptide binding]; other site 355276002068 putative IPP diphosphate binding site; other site 355276002069 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 355276002070 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 355276002071 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 355276002072 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 355276002073 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 355276002074 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 355276002075 active site 355276002076 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 355276002077 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 355276002078 RIP metalloprotease RseP; Region: TIGR00054 355276002079 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 355276002080 putative substrate binding region [chemical binding]; other site 355276002081 prolyl-tRNA synthetase; Provisional; Region: PRK09194 355276002082 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 355276002083 dimer interface [polypeptide binding]; other site 355276002084 motif 1; other site 355276002085 active site 355276002086 motif 2; other site 355276002087 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 355276002088 putative deacylase active site [active] 355276002089 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 355276002090 active site 355276002091 motif 3; other site 355276002092 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 355276002093 anticodon binding site; other site 355276002094 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 355276002095 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 355276002096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002097 catalytic residue [active] 355276002098 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 355276002099 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 355276002100 substrate binding site [chemical binding]; other site 355276002101 active site 355276002102 catalytic residues [active] 355276002103 heterodimer interface [polypeptide binding]; other site 355276002104 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276002105 CHASE2 domain; Region: CHASE2; cl01732 355276002106 cyclase homology domain; Region: CHD; cd07302 355276002107 nucleotidyl binding site; other site 355276002108 metal binding site [ion binding]; metal-binding site 355276002109 dimer interface [polypeptide binding]; other site 355276002110 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 355276002111 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 355276002112 TPP-binding site; other site 355276002113 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 355276002114 PYR/PP interface [polypeptide binding]; other site 355276002115 dimer interface [polypeptide binding]; other site 355276002116 TPP binding site [chemical binding]; other site 355276002117 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355276002118 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 355276002119 binding surface 355276002120 TPR motif; other site 355276002121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002122 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002123 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002124 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 355276002125 binding surface 355276002126 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276002127 TPR motif; other site 355276002128 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 355276002129 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 355276002130 binding surface 355276002131 TPR motif; other site 355276002132 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276002133 Uncharacterized conserved protein [Function unknown]; Region: COG3391 355276002134 NHL repeat; Region: NHL; pfam01436 355276002135 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 355276002136 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276002137 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 355276002138 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 355276002139 NAD(P) binding site [chemical binding]; other site 355276002140 homotetramer interface [polypeptide binding]; other site 355276002141 homodimer interface [polypeptide binding]; other site 355276002142 active site 355276002143 Phosphopantetheine attachment site; Region: PP-binding; cl09936 355276002144 ribonuclease III; Reviewed; Region: rnc; PRK00102 355276002145 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 355276002146 dimerization interface [polypeptide binding]; other site 355276002147 active site 355276002148 metal binding site [ion binding]; metal-binding site 355276002149 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 355276002150 dsRNA binding site [nucleotide binding]; other site 355276002151 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 355276002152 nudix motif; other site 355276002153 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 355276002154 active site 355276002155 dimer interface [polypeptide binding]; other site 355276002156 metal binding site [ion binding]; metal-binding site 355276002157 Mechanosensitive ion channel; Region: MS_channel; pfam00924 355276002158 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 355276002159 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 355276002160 active site 355276002161 NAD binding site [chemical binding]; other site 355276002162 metal binding site [ion binding]; metal-binding site 355276002163 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276002164 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276002165 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 355276002166 NAD synthetase; Provisional; Region: PRK13981 355276002167 multimer interface [polypeptide binding]; other site 355276002168 active site 355276002169 catalytic triad [active] 355276002170 protein interface 1 [polypeptide binding]; other site 355276002171 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 355276002172 homodimer interface [polypeptide binding]; other site 355276002173 NAD binding pocket [chemical binding]; other site 355276002174 ATP binding pocket [chemical binding]; other site 355276002175 Mg binding site [ion binding]; other site 355276002176 active-site loop [active] 355276002177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355276002178 active site 355276002179 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355276002180 Protein export membrane protein; Region: SecD_SecF; cl14618 355276002181 Bacterial Ig-like domain; Region: Big_5; cl01012 355276002182 Bacterial Ig-like domain; Region: Big_5; cl01012 355276002183 Bacterial Ig-like domain; Region: Big_5; cl01012 355276002184 Bacterial Ig-like domain; Region: Big_5; cl01012 355276002185 Bacterial Ig-like domain; Region: Big_5; cl01012 355276002186 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 355276002187 TPR motif; other site 355276002188 binding surface 355276002189 Outer membrane efflux protein; Region: OEP; pfam02321 355276002190 Outer membrane efflux protein; Region: OEP; pfam02321 355276002191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002192 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002193 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002194 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 355276002195 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 355276002196 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 355276002197 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 355276002198 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355276002199 FtsX-like permease family; Region: FtsX; cl15850 355276002200 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 355276002201 FtsX-like permease family; Region: FtsX; cl15850 355276002202 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 355276002203 Stage II sporulation protein; Region: SpoIID; pfam08486 355276002204 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355276002205 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276002206 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 355276002207 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355276002208 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 355276002209 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355276002210 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 355276002211 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 355276002212 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 355276002213 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 355276002214 O-Antigen ligase; Region: Wzy_C; cl04850 355276002215 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 355276002216 active site 355276002217 YCII-related domain; Region: YCII; cl00999 355276002218 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 355276002219 Dehydratase family; Region: ILVD_EDD; cl00340 355276002220 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 355276002221 non-specific DNA binding site [nucleotide binding]; other site 355276002222 salt bridge; other site 355276002223 sequence-specific DNA binding site [nucleotide binding]; other site 355276002224 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355276002225 putative acyl-acceptor binding pocket; other site 355276002226 PAP2_like_3 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria and archaea, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_3; cd03393 355276002227 active site 355276002228 MatE; Region: MatE; cl10513 355276002229 Response regulator receiver domain; Region: Response_reg; pfam00072 355276002230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002231 active site 355276002232 phosphorylation site [posttranslational modification] 355276002233 intermolecular recognition site; other site 355276002234 dimerization interface [polypeptide binding]; other site 355276002235 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355276002236 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 355276002237 protein binding site [polypeptide binding]; other site 355276002238 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 355276002239 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355276002240 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 355276002241 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002242 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002243 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002244 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 355276002245 active site residue [active] 355276002246 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 355276002247 active site residue [active] 355276002248 Protein of unknown function, DUF393; Region: DUF393; cl01136 355276002249 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276002250 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276002251 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 355276002252 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276002253 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276002254 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 355276002255 active site 355276002256 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355276002257 hydrophobic ligand binding site; other site 355276002258 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 355276002259 non-specific DNA binding site [nucleotide binding]; other site 355276002260 salt bridge; other site 355276002261 sequence-specific DNA binding site [nucleotide binding]; other site 355276002262 Cupin domain; Region: Cupin_2; cl09118 355276002263 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 355276002264 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 355276002265 transmembrane helices; other site 355276002266 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355276002267 metal binding site 2 [ion binding]; metal-binding site 355276002268 putative DNA binding helix; other site 355276002269 metal binding site 1 [ion binding]; metal-binding site 355276002270 dimer interface [polypeptide binding]; other site 355276002271 structural Zn2+ binding site [ion binding]; other site 355276002272 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 355276002273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002274 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355276002275 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355276002276 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 355276002277 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002278 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002279 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002280 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 355276002281 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 355276002282 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 355276002283 Leucine-rich repeats; other site 355276002284 Substrate binding site [chemical binding]; other site 355276002285 Leucine rich repeat; Region: LRR_8; pfam13855 355276002286 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 355276002287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002288 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355276002289 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355276002290 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 355276002291 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 355276002292 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 355276002293 Rhomboid family; Region: Rhomboid; cl11446 355276002294 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 355276002295 ornithine carbamoyltransferase; Provisional; Region: PRK14804 355276002296 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 355276002297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002298 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 355276002299 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 355276002300 G1 box; other site 355276002301 putative GEF interaction site [polypeptide binding]; other site 355276002302 GTP/Mg2+ binding site [chemical binding]; other site 355276002303 Switch I region; other site 355276002304 G2 box; other site 355276002305 G3 box; other site 355276002306 Switch II region; other site 355276002307 G4 box; other site 355276002308 G5 box; other site 355276002309 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 355276002310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 355276002311 Histidine kinase; Region: HisKA_2; cl06527 355276002312 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276002313 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 355276002314 Histidine kinase; Region: HisKA_2; cl06527 355276002315 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276002316 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 355276002317 Cysteine-rich domain; Region: CCG; pfam02754 355276002318 Cysteine-rich domain; Region: CCG; pfam02754 355276002319 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 355276002320 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 355276002321 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 355276002322 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 355276002323 FeS/SAM binding site; other site 355276002324 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355276002325 metal binding site [ion binding]; metal-binding site 355276002326 active site 355276002327 I-site; other site 355276002328 Sporulation and spore germination; Region: Germane; cl11253 355276002329 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 355276002330 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 355276002331 motif II; other site 355276002332 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 355276002333 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 355276002334 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 355276002335 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276002336 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; cl15243 355276002337 Protein of unknown function, DUF393; Region: DUF393; cl01136 355276002338 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276002339 PAS domain; Region: PAS_9; pfam13426 355276002340 putative active site [active] 355276002341 heme pocket [chemical binding]; other site 355276002342 PAS domain; Region: PAS_9; pfam13426 355276002343 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276002344 PAS domain; Region: PAS_9; pfam13426 355276002345 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276002346 PAS domain; Region: PAS_9; pfam13426 355276002347 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276002348 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355276002349 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276002350 putative active site [active] 355276002351 heme pocket [chemical binding]; other site 355276002352 GAF domain; Region: GAF; cl15785 355276002353 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 355276002354 dimer interface [polypeptide binding]; other site 355276002355 phosphorylation site [posttranslational modification] 355276002356 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276002357 ATP binding site [chemical binding]; other site 355276002358 Mg2+ binding site [ion binding]; other site 355276002359 G-X-G motif; other site 355276002360 TPR repeat; Region: TPR_11; pfam13414 355276002361 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 355276002362 binding surface 355276002363 TPR motif; other site 355276002364 TPR repeat; Region: TPR_11; pfam13414 355276002365 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 355276002366 binding surface 355276002367 TPR motif; other site 355276002368 TPR repeat; Region: TPR_11; pfam13414 355276002369 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 355276002370 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 355276002371 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 355276002372 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355276002373 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 355276002374 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276002375 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 355276002376 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 355276002377 active site 355276002378 NTP binding site [chemical binding]; other site 355276002379 metal binding triad [ion binding]; metal-binding site 355276002380 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 355276002381 DHH family; Region: DHH; pfam01368 355276002382 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 355276002383 DHHA1 domain; Region: DHHA1; pfam02272 355276002384 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355276002385 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 355276002386 RuvA N terminal domain; Region: RuvA_N; pfam01330 355276002387 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002388 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002389 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002391 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 355276002392 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 355276002393 UGMP family protein; Validated; Region: PRK09604 355276002394 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 355276002395 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 355276002396 C-terminal peptidase (prc); Region: prc; TIGR00225 355276002397 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 355276002398 protein binding site [polypeptide binding]; other site 355276002399 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 355276002400 Catalytic dyad [active] 355276002401 Helix-turn-helix domains; Region: HTH; cl00088 355276002402 LexA repressor; Validated; Region: PRK00215 355276002403 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 355276002404 Catalytic site [active] 355276002405 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002406 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002407 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002408 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 355276002409 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 355276002410 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355276002411 Thymidylate synthase complementing protein; Region: Thy1; cl03630 355276002412 Thymidylate synthase complementing protein; Region: Thy1; cl03630 355276002413 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 355276002414 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 355276002415 metal binding site [ion binding]; metal-binding site 355276002416 dimer interface [polypeptide binding]; other site 355276002417 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276002418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002420 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 355276002421 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 355276002422 putative active site [active] 355276002423 putative NTP binding site [chemical binding]; other site 355276002424 putative nucleic acid binding site [nucleotide binding]; other site 355276002425 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 355276002426 non-specific DNA binding site [nucleotide binding]; other site 355276002427 salt bridge; other site 355276002428 sequence-specific DNA binding site [nucleotide binding]; other site 355276002429 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 355276002430 non-specific DNA binding site [nucleotide binding]; other site 355276002431 salt bridge; other site 355276002432 sequence-specific DNA binding site [nucleotide binding]; other site 355276002433 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 355276002434 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 355276002435 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355276002436 SAF-like; Region: SAF_2; pfam13144 355276002437 SAF domain; Region: SAF; cl00555 355276002438 Flagellar L-ring protein; Region: FlgH; cl00905 355276002439 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 355276002440 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 355276002441 Rod binding protein; Region: Rod-binding; cl01626 355276002442 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 355276002443 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 355276002444 S-adenosylmethionine binding site [chemical binding]; other site 355276002445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002446 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276002447 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 355276002448 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 355276002449 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 355276002450 ring oligomerisation interface [polypeptide binding]; other site 355276002451 ATP/Mg binding site [chemical binding]; other site 355276002452 stacking interactions; other site 355276002453 hinge regions; other site 355276002454 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 355276002455 oligomerisation interface [polypeptide binding]; other site 355276002456 mobile loop; other site 355276002457 roof hairpin; other site 355276002458 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 355276002459 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276002460 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355276002461 cyclase homology domain; Region: CHD; cd07302 355276002462 nucleotidyl binding site; other site 355276002463 metal binding site [ion binding]; metal-binding site 355276002464 dimer interface [polypeptide binding]; other site 355276002465 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 355276002466 NADH(P)-binding; Region: NAD_binding_10; pfam13460 355276002467 NAD binding site [chemical binding]; other site 355276002468 active site 355276002469 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 355276002470 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 355276002471 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 355276002472 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276002473 Walker A motif; other site 355276002474 ATP binding site [chemical binding]; other site 355276002475 Walker B motif; other site 355276002476 flagellar assembly protein H; Validated; Region: fliH; PRK06669 355276002477 Flagellar assembly protein FliH; Region: FliH; pfam02108 355276002478 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 355276002479 FliG C-terminal domain; Region: FliG_C; pfam01706 355276002480 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 355276002481 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 355276002482 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 355276002483 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276002484 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 355276002485 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276002486 NeuB family; Region: NeuB; cl00496 355276002487 Sulfatase; Region: Sulfatase; cl10460 355276002488 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 355276002489 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 355276002490 G1 box; other site 355276002491 GTP/Mg2+ binding site [chemical binding]; other site 355276002492 Switch I region; other site 355276002493 G2 box; other site 355276002494 G3 box; other site 355276002495 Switch II region; other site 355276002496 G4 box; other site 355276002497 G5 box; other site 355276002498 Nucleoside recognition; Region: Gate; cl00486 355276002499 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 355276002500 Nucleoside recognition; Region: Gate; cl00486 355276002501 FeoA domain; Region: FeoA; cl00838 355276002502 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276002503 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 355276002504 active site 355276002505 ATP binding site [chemical binding]; other site 355276002506 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 355276002507 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 355276002508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276002509 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276002510 dimer interface [polypeptide binding]; other site 355276002511 putative CheW interface [polypeptide binding]; other site 355276002512 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 355276002513 binding surface 355276002514 TPR motif; other site 355276002515 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276002516 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 355276002517 binding surface 355276002518 TPR motif; other site 355276002519 TPR repeat; Region: TPR_11; pfam13414 355276002520 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 355276002521 binding surface 355276002522 TPR motif; other site 355276002523 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 355276002524 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 355276002525 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 355276002526 PYR/PP interface [polypeptide binding]; other site 355276002527 dimer interface [polypeptide binding]; other site 355276002528 TPP binding site [chemical binding]; other site 355276002529 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 355276002530 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 355276002531 TPP-binding site [chemical binding]; other site 355276002532 dimer interface [polypeptide binding]; other site 355276002533 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 355276002534 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 355276002535 putative valine binding site [chemical binding]; other site 355276002536 dimer interface [polypeptide binding]; other site 355276002537 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 355276002538 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 355276002539 active site 355276002540 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 355276002541 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 355276002542 FeS/SAM binding site; other site 355276002543 HemN C-terminal domain; Region: HemN_C; pfam06969 355276002544 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 355276002545 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 355276002546 active site 355276002547 catalytic triad [active] 355276002548 oxyanion hole [active] 355276002549 switch loop; other site 355276002550 trigger factor; Provisional; Region: tig; PRK01490 355276002551 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 355276002552 Clp protease; Region: CLP_protease; pfam00574 355276002553 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 355276002554 oligomer interface [polypeptide binding]; other site 355276002555 active site residues [active] 355276002556 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 355276002557 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 355276002558 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 355276002559 Walker A motif; other site 355276002560 ATP binding site [chemical binding]; other site 355276002561 Walker B motif; other site 355276002562 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355276002563 Phosphate transporter family; Region: PHO4; cl00396 355276002564 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276002565 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002566 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002567 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002568 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 355276002569 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 355276002570 putative active site; other site 355276002571 catalytic residue [active] 355276002572 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355276002573 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 355276002574 dimer interface [polypeptide binding]; other site 355276002575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002576 catalytic residue [active] 355276002577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002580 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355276002581 Pectinesterase; Region: Pectinesterase; cl01911 355276002582 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 355276002583 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355276002584 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 355276002585 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 355276002586 Cu(I) binding site [ion binding]; other site 355276002587 Protein of unknown function, DUF486; Region: DUF486; cl01236 355276002588 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 355276002589 putative dimer interface [polypeptide binding]; other site 355276002590 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 355276002591 putative dimer interface [polypeptide binding]; other site 355276002592 Beta-propeller repeat; Region: SBBP; pfam06739 355276002593 Beta-propeller repeat; Region: SBBP; pfam06739 355276002594 Beta-propeller repeat; Region: SBBP; pfam06739 355276002595 Beta-propeller repeat; Region: SBBP; pfam06739 355276002596 Beta-propeller repeat; Region: SBBP; pfam06739 355276002597 Beta-propeller repeat; Region: SBBP; pfam06739 355276002598 Beta-propeller repeat; Region: SBBP; pfam06739 355276002599 Beta-propeller repeat; Region: SBBP; pfam06739 355276002600 Beta-propeller repeat; Region: SBBP; pfam06739 355276002601 Beta-propeller repeat; Region: SBBP; pfam06739 355276002602 Beta-propeller repeat; Region: SBBP; pfam06739 355276002603 Helix-turn-helix domains; Region: HTH; cl00088 355276002604 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 355276002605 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 355276002606 NADP binding site [chemical binding]; other site 355276002607 active site 355276002608 putative substrate binding site [chemical binding]; other site 355276002609 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH3; cd08184 355276002610 putative active site [active] 355276002611 metal binding site [ion binding]; metal-binding site 355276002612 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 355276002613 active site 355276002614 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 355276002615 NeuB family; Region: NeuB; cl00496 355276002616 SAF domain; Region: SAF; cl00555 355276002617 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355276002618 ligand binding site; other site 355276002619 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 355276002620 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 355276002621 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 355276002622 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355276002623 inhibitor-cofactor binding pocket; inhibition site 355276002624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002625 catalytic residue [active] 355276002626 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 355276002627 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 355276002628 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 355276002629 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355276002630 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355276002631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002632 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355276002633 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 355276002634 inhibitor-cofactor binding pocket; inhibition site 355276002635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002636 catalytic residue [active] 355276002637 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 355276002638 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276002639 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 355276002640 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 355276002641 putative NAD(P) binding site [chemical binding]; other site 355276002642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002643 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 355276002644 S-adenosylmethionine binding site [chemical binding]; other site 355276002645 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 355276002646 S-adenosylmethionine binding site [chemical binding]; other site 355276002647 M28 Zn-Peptidases; Region: M28_like_7; cd05643 355276002648 putative metal binding site [ion binding]; other site 355276002649 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355276002650 ligand binding site; other site 355276002651 classical (c) SDR, subgroup 8; Region: SDR_c8; cd08930 355276002652 flagellin modification protein A; Provisional; Region: PRK09186 355276002653 putative NAD(P) binding site [chemical binding]; other site 355276002654 active site 355276002655 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 355276002656 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 355276002657 active site 355276002658 catalytic tetrad [active] 355276002659 NeuB family; Region: NeuB; cl00496 355276002660 WbqC-like protein family; Region: WbqC; pfam08889 355276002661 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355276002662 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 355276002663 inhibitor-cofactor binding pocket; inhibition site 355276002664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002665 catalytic residue [active] 355276002666 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 355276002667 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 355276002668 Walker A/P-loop; other site 355276002669 ATP binding site [chemical binding]; other site 355276002670 Q-loop/lid; other site 355276002671 ABC transporter signature motif; other site 355276002672 Walker B; other site 355276002673 D-loop; other site 355276002674 H-loop/switch region; other site 355276002675 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 355276002676 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 355276002677 putative active site [active] 355276002678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002679 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 355276002680 dimer interface [polypeptide binding]; other site 355276002681 active site 355276002682 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 355276002683 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 355276002684 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 355276002685 Ligand binding site; other site 355276002686 oligomer interface; other site 355276002687 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355276002688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002689 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 355276002690 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 355276002691 active site 355276002692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002693 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002694 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002696 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355276002697 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 355276002698 S-adenosylmethionine binding site [chemical binding]; other site 355276002699 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 355276002700 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 355276002701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002702 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 355276002703 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 355276002704 active site 355276002705 GMP synthase; Reviewed; Region: guaA; PRK00074 355276002706 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 355276002707 Ligand Binding Site [chemical binding]; other site 355276002708 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 355276002709 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 355276002710 putative active site [active] 355276002711 oxyanion strand; other site 355276002712 catalytic triad [active] 355276002713 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 355276002714 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 355276002715 substrate binding site [chemical binding]; other site 355276002716 glutamase interaction surface [polypeptide binding]; other site 355276002717 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276002718 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 355276002719 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 355276002720 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 355276002721 NAD binding site [chemical binding]; other site 355276002722 substrate binding site [chemical binding]; other site 355276002723 active site 355276002724 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 355276002725 Substrate binding site; other site 355276002726 metal-binding site 355276002727 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355276002728 extended (e) SDRs; Region: SDR_e; cd08946 355276002729 NAD(P) binding site [chemical binding]; other site 355276002730 active site 355276002731 substrate binding site [chemical binding]; other site 355276002732 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 355276002733 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 355276002734 NADP binding site [chemical binding]; other site 355276002735 active site 355276002736 putative substrate binding site [chemical binding]; other site 355276002737 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 355276002738 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 355276002739 NAD(P) binding site [chemical binding]; other site 355276002740 homodimer interface [polypeptide binding]; other site 355276002741 substrate binding site [chemical binding]; other site 355276002742 active site 355276002743 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 355276002744 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 355276002745 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 355276002746 active site 355276002747 homodimer interface [polypeptide binding]; other site 355276002748 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276002749 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 355276002750 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 355276002751 Bacterial sugar transferase; Region: Bac_transf; cl00939 355276002752 MatE; Region: MatE; cl10513 355276002753 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 355276002754 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 355276002755 active site 355276002756 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 355276002757 active site 355276002758 Cupin domain; Region: Cupin_2; cl09118 355276002759 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 355276002760 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 355276002761 inhibitor-cofactor binding pocket; inhibition site 355276002762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002763 catalytic residue [active] 355276002764 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 355276002765 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 355276002766 metal-binding site 355276002767 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 355276002768 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 355276002769 active site 355276002770 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 355276002771 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 355276002772 Probable Catalytic site; other site 355276002773 metal-binding site 355276002774 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 355276002775 Cupin domain; Region: Cupin_2; cl09118 355276002776 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 355276002777 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 355276002778 NADP binding site [chemical binding]; other site 355276002779 active site 355276002780 putative substrate binding site [chemical binding]; other site 355276002781 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 355276002782 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 355276002783 NAD binding site [chemical binding]; other site 355276002784 substrate binding site [chemical binding]; other site 355276002785 homodimer interface [polypeptide binding]; other site 355276002786 active site 355276002787 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 355276002788 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 355276002789 substrate binding site; other site 355276002790 tetramer interface; other site 355276002791 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 355276002792 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 355276002793 Probable Catalytic site; other site 355276002794 metal-binding site 355276002795 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 355276002796 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 355276002797 Ligand binding site; other site 355276002798 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 355276002799 active site 355276002800 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 355276002801 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 355276002802 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 355276002803 transmembrane helices; other site 355276002804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276002805 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276002806 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276002807 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 355276002808 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 355276002809 putative active site [active] 355276002810 putative metal binding site [ion binding]; other site 355276002811 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 355276002812 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 355276002813 dimer interface [polypeptide binding]; other site 355276002814 ssDNA binding site [nucleotide binding]; other site 355276002815 tetramer (dimer of dimers) interface [polypeptide binding]; other site 355276002816 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 355276002817 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 355276002818 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 355276002819 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 355276002820 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 355276002821 replicative DNA helicase; Region: DnaB; TIGR00665 355276002822 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 355276002823 Walker A motif; other site 355276002824 ATP binding site [chemical binding]; other site 355276002825 Walker B motif; other site 355276002826 DNA binding loops [nucleotide binding] 355276002827 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 355276002828 dimer interface [polypeptide binding]; other site 355276002829 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 355276002830 anticodon binding site; other site 355276002831 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 355276002832 homodimer interface [polypeptide binding]; other site 355276002833 motif 1; other site 355276002834 active site 355276002835 motif 2; other site 355276002836 GAD domain; Region: GAD; pfam02938 355276002837 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 355276002838 motif 3; other site 355276002839 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276002840 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 355276002841 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 355276002842 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355276002843 Zn2+ binding site [ion binding]; other site 355276002844 Mg2+ binding site [ion binding]; other site 355276002845 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 355276002846 Recombination protein O N terminal; Region: RecO_N; cl15812 355276002847 DNA repair protein RecO; Region: reco; TIGR00613 355276002848 Recombination protein O C terminal; Region: RecO_C; pfam02565 355276002849 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 355276002850 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 355276002851 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355276002852 active site 355276002853 HIGH motif; other site 355276002854 nucleotide binding site [chemical binding]; other site 355276002855 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 355276002856 KMSK motif region; other site 355276002857 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 355276002858 anticodon binding site; other site 355276002859 tRNA binding surface [nucleotide binding]; other site 355276002860 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 355276002861 competence damage-inducible protein A; Provisional; Region: PRK00549 355276002862 putative MPT binding site; other site 355276002863 Competence-damaged protein; Region: CinA; cl00666 355276002864 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 355276002865 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 355276002866 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355276002867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002868 active site 355276002869 phosphorylation site [posttranslational modification] 355276002870 intermolecular recognition site; other site 355276002871 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276002872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 355276002873 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 355276002874 dimer interface [polypeptide binding]; other site 355276002875 phosphorylation site [posttranslational modification] 355276002876 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276002877 ATP binding site [chemical binding]; other site 355276002878 Mg2+ binding site [ion binding]; other site 355276002879 G-X-G motif; other site 355276002880 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 355276002881 substrate binding site [chemical binding]; other site 355276002882 dimer interface [polypeptide binding]; other site 355276002883 catalytic triad [active] 355276002884 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 355276002885 Phosphoglycerate kinase; Region: PGK; pfam00162 355276002886 substrate binding site [chemical binding]; other site 355276002887 hinge regions; other site 355276002888 ADP binding site [chemical binding]; other site 355276002889 catalytic site [active] 355276002890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002891 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 355276002892 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 355276002893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002894 active site 355276002895 phosphorylation site [posttranslational modification] 355276002896 intermolecular recognition site; other site 355276002897 dimerization interface [polypeptide binding]; other site 355276002898 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 355276002899 Catalytic site [active] 355276002900 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 355276002901 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 355276002902 trimer interface [polypeptide binding]; other site 355276002903 putative metal binding site [ion binding]; other site 355276002904 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 355276002905 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355276002906 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 355276002907 dimer interface [polypeptide binding]; other site 355276002908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276002909 catalytic residue [active] 355276002910 DNA topoisomerase I; Validated; Region: PRK05582 355276002911 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 355276002912 active site 355276002913 interdomain interaction site; other site 355276002914 putative metal-binding site [ion binding]; other site 355276002915 nucleotide binding site [chemical binding]; other site 355276002916 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 355276002917 domain I; other site 355276002918 DNA binding groove [nucleotide binding] 355276002919 phosphate binding site [ion binding]; other site 355276002920 domain II; other site 355276002921 domain III; other site 355276002922 nucleotide binding site [chemical binding]; other site 355276002923 catalytic site [active] 355276002924 domain IV; other site 355276002925 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 355276002926 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 355276002927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276002928 Walker A/P-loop; other site 355276002929 ATP binding site [chemical binding]; other site 355276002930 Q-loop/lid; other site 355276002931 ABC transporter signature motif; other site 355276002932 Walker B; other site 355276002933 D-loop; other site 355276002934 H-loop/switch region; other site 355276002935 HDOD domain; Region: HDOD; pfam08668 355276002936 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355276002937 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 355276002938 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 355276002939 tetramerization interface [polypeptide binding]; other site 355276002940 active site 355276002941 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 355276002942 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355276002943 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 355276002944 anti sigma factor interaction site; other site 355276002945 regulatory phosphorylation site [posttranslational modification]; other site 355276002946 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 355276002947 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 355276002948 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355276002949 Helix-turn-helix domains; Region: HTH; cl00088 355276002950 Helix-turn-helix domains; Region: HTH; cl00088 355276002951 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 355276002952 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355276002953 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355276002954 putative acyl-acceptor binding pocket; other site 355276002955 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 355276002956 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 355276002957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276002958 CheB methylesterase; Region: CheB_methylest; pfam01339 355276002959 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 355276002960 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 355276002961 GAF domain; Region: GAF_2; pfam13185 355276002962 GAF domain; Region: GAF; cl15785 355276002963 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 355276002964 dimer interface [polypeptide binding]; other site 355276002965 phosphorylation site [posttranslational modification] 355276002966 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276002967 ATP binding site [chemical binding]; other site 355276002968 Mg2+ binding site [ion binding]; other site 355276002969 G-X-G motif; other site 355276002970 Response regulator receiver domain; Region: Response_reg; pfam00072 355276002971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002972 active site 355276002973 phosphorylation site [posttranslational modification] 355276002974 intermolecular recognition site; other site 355276002975 dimerization interface [polypeptide binding]; other site 355276002976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002977 active site 355276002978 phosphorylation site [posttranslational modification] 355276002979 intermolecular recognition site; other site 355276002980 Response regulator receiver domain; Region: Response_reg; pfam00072 355276002981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002982 active site 355276002983 phosphorylation site [posttranslational modification] 355276002984 intermolecular recognition site; other site 355276002985 dimerization interface [polypeptide binding]; other site 355276002986 Response regulator receiver domain; Region: Response_reg; pfam00072 355276002987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276002988 active site 355276002989 phosphorylation site [posttranslational modification] 355276002990 intermolecular recognition site; other site 355276002991 dimerization interface [polypeptide binding]; other site 355276002992 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 355276002993 dimer interface [polypeptide binding]; other site 355276002994 phosphorylation site [posttranslational modification] 355276002995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276002996 ATP binding site [chemical binding]; other site 355276002997 Mg2+ binding site [ion binding]; other site 355276002998 G-X-G motif; other site 355276002999 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276003000 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 355276003001 non-specific DNA binding site [nucleotide binding]; other site 355276003002 salt bridge; other site 355276003003 sequence-specific DNA binding site [nucleotide binding]; other site 355276003004 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 355276003005 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276003006 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276003007 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276003008 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 355276003009 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 355276003010 hypothetical protein; Provisional; Region: PLN03150 355276003011 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 355276003012 FliG C-terminal domain; Region: FliG_C; pfam01706 355276003013 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 355276003014 E3 interaction surface; other site 355276003015 lipoyl attachment site [posttranslational modification]; other site 355276003016 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 355276003017 e3 binding domain; Region: E3_binding; pfam02817 355276003018 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 355276003019 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 355276003020 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 355276003021 alpha subunit interface [polypeptide binding]; other site 355276003022 TPP binding site [chemical binding]; other site 355276003023 heterodimer interface [polypeptide binding]; other site 355276003024 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355276003025 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 355276003026 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 355276003027 tetramer interface [polypeptide binding]; other site 355276003028 TPP-binding site [chemical binding]; other site 355276003029 heterodimer interface [polypeptide binding]; other site 355276003030 phosphorylation loop region [posttranslational modification] 355276003031 DNA-binding response regulator CreB; Provisional; Region: PRK11083 355276003032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003033 active site 355276003034 phosphorylation site [posttranslational modification] 355276003035 intermolecular recognition site; other site 355276003036 dimerization interface [polypeptide binding]; other site 355276003037 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 355276003038 DNA binding site [nucleotide binding] 355276003039 sensory histidine kinase CreC; Provisional; Region: PRK11100 355276003040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276003041 ATP binding site [chemical binding]; other site 355276003042 Mg2+ binding site [ion binding]; other site 355276003043 G-X-G motif; other site 355276003044 Inner membrane protein CreD; Region: CreD; cl01844 355276003045 flagellin; Provisional; Region: PRK12804 355276003046 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355276003047 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355276003048 flagellin; Provisional; Region: PRK12804 355276003049 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355276003050 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355276003051 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 355276003052 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 355276003053 Peptidase family M48; Region: Peptidase_M48; cl12018 355276003054 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 355276003055 GDYXXLXY protein; Region: GDYXXLXY; cl02066 355276003056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276003057 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 355276003058 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 355276003059 mce related protein; Region: MCE; pfam02470 355276003060 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 355276003061 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 355276003062 Walker A/P-loop; other site 355276003063 ATP binding site [chemical binding]; other site 355276003064 Q-loop/lid; other site 355276003065 ABC transporter signature motif; other site 355276003066 Walker B; other site 355276003067 D-loop; other site 355276003068 H-loop/switch region; other site 355276003069 Permease; Region: Permease; cl00510 355276003070 D-alanyl-alanine synthetase A; Provisional; Region: PRK14572 355276003071 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 355276003072 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276003073 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 355276003074 S-adenosylmethionine binding site [chemical binding]; other site 355276003075 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 355276003076 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 355276003077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 355276003078 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 355276003079 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 355276003080 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 355276003081 Walker A motif; other site 355276003082 ATP binding site [chemical binding]; other site 355276003083 Walker B motif; other site 355276003084 arginine finger; other site 355276003085 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 355276003086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276003087 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 355276003088 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 355276003089 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 355276003090 Haem-binding domain; Region: Haem_bd; pfam14376 355276003091 argininosuccinate lyase; Provisional; Region: PRK00855 355276003092 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 355276003093 active sites [active] 355276003094 tetramer interface [polypeptide binding]; other site 355276003095 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 355276003096 active site 355276003097 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 355276003098 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 355276003099 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 355276003100 FecR protein; Region: FecR; pfam04773 355276003101 Plant ATP synthase F0; Region: YMF19; cl07975 355276003102 PQ loop repeat; Region: PQ-loop; cl12056 355276003103 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 355276003104 GMP synthase; Reviewed; Region: guaA; PRK00074 355276003105 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 355276003106 AMP/PPi binding site [chemical binding]; other site 355276003107 candidate oxyanion hole; other site 355276003108 catalytic triad [active] 355276003109 potential glutamine specificity residues [chemical binding]; other site 355276003110 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 355276003111 ATP Binding subdomain [chemical binding]; other site 355276003112 Ligand Binding sites [chemical binding]; other site 355276003113 Dimerization subdomain; other site 355276003114 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 355276003115 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 355276003116 O-Antigen ligase; Region: Wzy_C; cl04850 355276003117 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 355276003118 putative metal binding site; other site 355276003119 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 355276003120 dimer interface [polypeptide binding]; other site 355276003121 active site 355276003122 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 355276003123 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355276003124 Walker A/P-loop; other site 355276003125 ATP binding site [chemical binding]; other site 355276003126 Q-loop/lid; other site 355276003127 ABC transporter signature motif; other site 355276003128 Walker B; other site 355276003129 D-loop; other site 355276003130 H-loop/switch region; other site 355276003131 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 355276003132 phosphopeptide binding site; other site 355276003133 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 355276003134 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 355276003135 substrate binding site [chemical binding]; other site 355276003136 ligand binding site [chemical binding]; other site 355276003137 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 355276003138 substrate binding site [chemical binding]; other site 355276003139 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 355276003140 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 355276003141 dimer interface [polypeptide binding]; other site 355276003142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276003143 catalytic residue [active] 355276003144 DNA helicase, putative; Region: TIGR00376 355276003145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003146 Family description; Region: UvrD_C_2; cl15862 355276003147 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276003148 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276003149 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 355276003150 DNA binding residues [nucleotide binding] 355276003151 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276003152 Protein of unknown function, DUF482; Region: DUF482; pfam04339 355276003153 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 355276003154 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 355276003155 Clp amino terminal domain; Region: Clp_N; pfam02861 355276003156 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 355276003157 Walker A motif; other site 355276003158 ATP binding site [chemical binding]; other site 355276003159 Walker B motif; other site 355276003160 arginine finger; other site 355276003161 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 355276003162 Walker A motif; other site 355276003163 ATP binding site [chemical binding]; other site 355276003164 Walker B motif; other site 355276003165 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355276003166 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 355276003167 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 355276003168 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 355276003169 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 355276003170 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276003171 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355276003172 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 355276003173 putative GSH binding site [chemical binding]; other site 355276003174 catalytic residues [active] 355276003175 BolA-like protein; Region: BolA; cl00386 355276003176 BolA-like protein; Region: BolA; cl00386 355276003177 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355276003178 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355276003179 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003180 Walker A/P-loop; other site 355276003181 ATP binding site [chemical binding]; other site 355276003182 Q-loop/lid; other site 355276003183 ABC transporter signature motif; other site 355276003184 Walker B; other site 355276003185 D-loop; other site 355276003186 H-loop/switch region; other site 355276003187 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 355276003188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355276003189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355276003190 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276003191 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 355276003192 anti sigma factor interaction site; other site 355276003193 regulatory phosphorylation site [posttranslational modification]; other site 355276003194 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276003195 glycerol kinase; Provisional; Region: glpK; PRK00047 355276003196 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 355276003197 N- and C-terminal domain interface [polypeptide binding]; other site 355276003198 active site 355276003199 MgATP binding site [chemical binding]; other site 355276003200 catalytic site [active] 355276003201 metal binding site [ion binding]; metal-binding site 355276003202 glycerol binding site [chemical binding]; other site 355276003203 homotetramer interface [polypeptide binding]; other site 355276003204 homodimer interface [polypeptide binding]; other site 355276003205 FBP binding site [chemical binding]; other site 355276003206 protein IIAGlc interface [polypeptide binding]; other site 355276003207 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 355276003208 proline dipeptidase; Provisional; Region: PRK13607 355276003209 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276003210 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276003211 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276003212 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355276003213 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355276003214 tandem repeat interface [polypeptide binding]; other site 355276003215 oligomer interface [polypeptide binding]; other site 355276003216 active site residues [active] 355276003217 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 355276003218 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 355276003219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003220 ATP binding site [chemical binding]; other site 355276003221 putative Mg++ binding site [ion binding]; other site 355276003222 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 355276003223 nucleotide binding region [chemical binding]; other site 355276003224 ATP-binding site [chemical binding]; other site 355276003225 aspartate aminotransferase; Provisional; Region: PRK05764 355276003226 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 355276003227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276003228 homodimer interface [polypeptide binding]; other site 355276003229 catalytic residue [active] 355276003230 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 355276003231 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276003232 Sodium:solute symporter family; Region: SSF; cl00456 355276003233 homoserine kinase; Provisional; Region: PRK01212 355276003234 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355276003235 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 355276003236 malate dehydrogenase; Provisional; Region: PRK05442 355276003237 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 355276003238 NAD(P) binding site [chemical binding]; other site 355276003239 dimer interface [polypeptide binding]; other site 355276003240 malate binding site [chemical binding]; other site 355276003241 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 355276003242 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 355276003243 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276003244 catalytic residue [active] 355276003245 AAA domain; Region: AAA_26; pfam13500 355276003246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003247 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 355276003248 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 355276003249 inhibitor-cofactor binding pocket; inhibition site 355276003250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276003251 catalytic residue [active] 355276003252 biotin synthase; Region: bioB; TIGR00433 355276003253 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 355276003254 FeS/SAM binding site; other site 355276003255 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 355276003256 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 355276003257 active site 355276003258 catalytic triad [active] 355276003259 oxyanion hole [active] 355276003260 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276003261 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 355276003262 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 355276003263 motif II; other site 355276003264 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 355276003265 MutS domain I; Region: MutS_I; pfam01624 355276003266 MutS domain II; Region: MutS_II; pfam05188 355276003267 MutS family domain IV; Region: MutS_IV; pfam05190 355276003268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003269 Walker A/P-loop; other site 355276003270 ATP binding site [chemical binding]; other site 355276003271 Q-loop/lid; other site 355276003272 ABC transporter signature motif; other site 355276003273 Walker B; other site 355276003274 D-loop; other site 355276003275 H-loop/switch region; other site 355276003276 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 355276003277 active site 355276003278 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 355276003279 Response regulator receiver domain; Region: Response_reg; pfam00072 355276003280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003281 active site 355276003282 phosphorylation site [posttranslational modification] 355276003283 intermolecular recognition site; other site 355276003284 dimerization interface [polypeptide binding]; other site 355276003285 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 355276003286 tartrate dehydrogenase; Provisional; Region: PRK08194 355276003287 acetylornithine aminotransferase; Provisional; Region: PRK02627 355276003288 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 355276003289 inhibitor-cofactor binding pocket; inhibition site 355276003290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276003291 catalytic residue [active] 355276003292 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 355276003293 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 355276003294 active site 355276003295 substrate binding site [chemical binding]; other site 355276003296 metal binding site [ion binding]; metal-binding site 355276003297 transaminase; Validated; Region: PRK07324 355276003298 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 355276003299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276003300 homodimer interface [polypeptide binding]; other site 355276003301 catalytic residue [active] 355276003302 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 355276003303 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 355276003304 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355276003305 minor groove reading motif; other site 355276003306 helix-hairpin-helix signature motif; other site 355276003307 substrate binding pocket [chemical binding]; other site 355276003308 active site 355276003309 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 355276003310 RF-1 domain; Region: RF-1; cl02875 355276003311 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 355276003312 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 355276003313 GIY-YIG motif/motif A; other site 355276003314 active site 355276003315 catalytic site [active] 355276003316 putative DNA binding site [nucleotide binding]; other site 355276003317 metal binding site [ion binding]; metal-binding site 355276003318 UvrB/uvrC motif; Region: UVR; pfam02151 355276003319 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 355276003320 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 355276003321 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 355276003322 putative active site [active] 355276003323 catalytic site [active] 355276003324 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 355276003325 PLD-like domain; Region: PLDc_2; pfam13091 355276003326 putative active site [active] 355276003327 catalytic site [active] 355276003328 Winged helix-turn helix; Region: HTH_29; pfam13551 355276003329 Helix-turn-helix domains; Region: HTH; cl00088 355276003330 Winged helix-turn helix; Region: HTH_33; pfam13592 355276003331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276003332 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 355276003333 putative ADP-binding pocket [chemical binding]; other site 355276003334 O-Antigen ligase; Region: Wzy_C; cl04850 355276003335 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 355276003336 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 355276003337 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 355276003338 putative active site [active] 355276003339 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 355276003340 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355276003341 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 355276003342 ligand binding site [chemical binding]; other site 355276003343 flexible hinge region; other site 355276003344 hypothetical protein; Provisional; Region: PRK10279 355276003345 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 355276003346 nucleophile elbow; other site 355276003347 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355276003348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276003349 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276003350 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276003351 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 355276003352 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 355276003353 N-terminal plug; other site 355276003354 ligand-binding site [chemical binding]; other site 355276003355 Heat-labile enterotoxin alpha chain; Region: Enterotoxin_a; pfam01375 355276003356 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276003357 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 355276003358 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 355276003359 active site 355276003360 catalytic residues [active] 355276003361 metal binding site [ion binding]; metal-binding site 355276003362 GAF domain; Region: GAF_2; pfam13185 355276003363 GAF domain; Region: GAF_2; pfam13185 355276003364 GAF domain; Region: GAF; cl15785 355276003365 GAF domain; Region: GAF; cl15785 355276003366 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355276003367 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276003368 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355276003369 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276003370 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 355276003371 anti sigma factor interaction site; other site 355276003372 regulatory phosphorylation site [posttranslational modification]; other site 355276003373 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 355276003374 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 355276003375 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 355276003376 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 355276003377 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355276003378 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 355276003379 Pyruvate carboxylase [Energy production and conversion]; Region: PycA; COG1038 355276003380 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 355276003381 carboxyltransferase (CT) interaction site; other site 355276003382 biotinylation site [posttranslational modification]; other site 355276003383 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355276003384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003385 active site 355276003386 phosphorylation site [posttranslational modification] 355276003387 intermolecular recognition site; other site 355276003388 dimerization interface [polypeptide binding]; other site 355276003389 CheB methylesterase; Region: CheB_methylest; pfam01339 355276003390 CheD chemotactic sensory transduction; Region: CheD; cl00810 355276003391 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355276003392 PAS fold; Region: PAS; pfam00989 355276003393 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276003394 PAS domain; Region: PAS_10; pfam13596 355276003395 PAS domain; Region: PAS_9; pfam13426 355276003396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276003397 dimer interface [polypeptide binding]; other site 355276003398 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 355276003399 putative CheW interface [polypeptide binding]; other site 355276003400 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 355276003401 anti sigma factor interaction site; other site 355276003402 regulatory phosphorylation site [posttranslational modification]; other site 355276003403 Response regulator receiver domain; Region: Response_reg; pfam00072 355276003404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003405 active site 355276003406 phosphorylation site [posttranslational modification] 355276003407 intermolecular recognition site; other site 355276003408 dimerization interface [polypeptide binding]; other site 355276003409 LytB protein; Region: LYTB; cl00507 355276003410 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276003411 flagellin; Provisional; Region: PRK12804 355276003412 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355276003413 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355276003414 flagellin; Provisional; Region: PRK12804 355276003415 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355276003416 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 355276003417 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 355276003418 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 355276003419 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355276003420 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 355276003421 NlpC/P60 family; Region: NLPC_P60; cl11438 355276003422 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 355276003423 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 355276003424 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355276003425 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 355276003426 active site 355276003427 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355276003428 TSCPD domain; Region: TSCPD; cl14834 355276003429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276003430 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276003431 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276003432 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 355276003433 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 355276003434 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 355276003435 generic binding surface II; other site 355276003436 generic binding surface I; other site 355276003437 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 355276003438 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 355276003439 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355276003440 Uncharacterized conserved protein [Function unknown]; Region: COG4850 355276003441 Smr domain; Region: Smr; cl02619 355276003442 (R)-citramalate synthase; Provisional; Region: PRK09389 355276003443 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 355276003444 active site 355276003445 catalytic residues [active] 355276003446 metal binding site [ion binding]; metal-binding site 355276003447 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 355276003448 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 355276003449 putative active site [active] 355276003450 catalytic residue [active] 355276003451 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 355276003452 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 355276003453 Int/Topo IB signature motif; other site 355276003454 active site 355276003455 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 355276003456 active site 355276003457 HslU subunit interaction site [polypeptide binding]; other site 355276003458 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 355276003459 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 355276003460 Walker A motif; other site 355276003461 ATP binding site [chemical binding]; other site 355276003462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003463 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355276003464 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 355276003465 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 355276003466 E3 interaction surface; other site 355276003467 lipoyl attachment site [posttranslational modification]; other site 355276003468 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355276003469 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 355276003470 putative active site [active] 355276003471 putative metal binding site [ion binding]; other site 355276003472 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355276003473 active site 355276003474 metal binding site [ion binding]; metal-binding site 355276003475 Domain of unknown function DUF59; Region: DUF59; cl00941 355276003476 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 355276003477 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 355276003478 Walker A motif; other site 355276003479 aromatic acid decarboxylase; Validated; Region: PRK05920 355276003480 Flavoprotein; Region: Flavoprotein; cl08021 355276003481 UbiA prenyltransferase family; Region: UbiA; cl00337 355276003482 GTP-binding protein YchF; Reviewed; Region: PRK09601 355276003483 YchF GTPase; Region: YchF; cd01900 355276003484 G1 box; other site 355276003485 GTP/Mg2+ binding site [chemical binding]; other site 355276003486 Switch I region; other site 355276003487 G2 box; other site 355276003488 Switch II region; other site 355276003489 G3 box; other site 355276003490 G4 box; other site 355276003491 G5 box; other site 355276003492 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 355276003493 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355276003494 endonuclease III; Region: ENDO3c; smart00478 355276003495 minor groove reading motif; other site 355276003496 helix-hairpin-helix signature motif; other site 355276003497 substrate binding pocket [chemical binding]; other site 355276003498 active site 355276003499 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 355276003500 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 355276003501 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 355276003502 NADP binding site [chemical binding]; other site 355276003503 homopentamer interface [polypeptide binding]; other site 355276003504 substrate binding site [chemical binding]; other site 355276003505 active site 355276003506 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 355276003507 dimerization interface [polypeptide binding]; other site 355276003508 putative DNA binding site [nucleotide binding]; other site 355276003509 putative Zn2+ binding site [ion binding]; other site 355276003510 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355276003511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276003512 NAD(P) binding site [chemical binding]; other site 355276003513 active site 355276003514 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 355276003515 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 355276003516 Walker A/P-loop; other site 355276003517 ATP binding site [chemical binding]; other site 355276003518 Q-loop/lid; other site 355276003519 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 355276003520 ABC transporter signature motif; other site 355276003521 Walker B; other site 355276003522 D-loop; other site 355276003523 H-loop/switch region; other site 355276003524 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355276003525 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355276003526 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 355276003527 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355276003528 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355276003529 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355276003530 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 355276003531 Surface antigen; Region: Bac_surface_Ag; cl03097 355276003532 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 355276003533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003534 Family description; Region: UvrD_C_2; cl15862 355276003535 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 355276003536 active site 355276003537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276003538 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 355276003539 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 355276003540 catalytic residues [active] 355276003541 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 355276003542 AMP-binding enzyme; Region: AMP-binding; cl15778 355276003543 AMP-binding enzyme; Region: AMP-binding; cl15778 355276003544 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 355276003545 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 355276003546 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 355276003547 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 355276003548 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 355276003549 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 355276003550 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 355276003551 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 355276003552 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 355276003553 biotin synthase; Provisional; Region: PRK08508 355276003554 FecR protein; Region: FecR; pfam04773 355276003555 lipoyl synthase; Provisional; Region: PRK05481 355276003556 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 355276003557 FeS/SAM binding site; other site 355276003558 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 355276003559 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 355276003560 RNA binding surface [nucleotide binding]; other site 355276003561 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 355276003562 active site 355276003563 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276003564 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355276003565 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 355276003566 active site 355276003567 intersubunit interactions; other site 355276003568 catalytic residue [active] 355276003569 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 355276003570 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 355276003571 purine monophosphate binding site [chemical binding]; other site 355276003572 dimer interface [polypeptide binding]; other site 355276003573 putative catalytic residues [active] 355276003574 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 355276003575 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 355276003576 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 355276003577 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 355276003578 active site 355276003579 substrate binding site [chemical binding]; other site 355276003580 cosubstrate binding site; other site 355276003581 catalytic site [active] 355276003582 Flagellar protein FliS; Region: FliS; cl00654 355276003583 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 355276003584 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 355276003585 active site 355276003586 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355276003587 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 355276003588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355276003589 Zn2+ binding site [ion binding]; other site 355276003590 Mg2+ binding site [ion binding]; other site 355276003591 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 355276003592 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 355276003593 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276003594 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276003595 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276003596 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 355276003597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276003598 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 355276003599 recombinase A; Provisional; Region: recA; PRK09354 355276003600 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 355276003601 hexamer interface [polypeptide binding]; other site 355276003602 Walker A motif; other site 355276003603 ATP binding site [chemical binding]; other site 355276003604 Walker B motif; other site 355276003605 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 355276003606 nucleotide binding site/active site [active] 355276003607 HIT family signature motif; other site 355276003608 catalytic residue [active] 355276003609 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 355276003610 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 355276003611 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 355276003612 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 355276003613 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 355276003614 MG2 domain; Region: A2M_N; pfam01835 355276003615 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 355276003616 Alpha-2-macroglobulin family; Region: A2M; pfam00207 355276003617 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 355276003618 Transglycosylase; Region: Transgly; cl07896 355276003619 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276003620 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 355276003621 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 355276003622 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355276003623 Walker A motif; other site 355276003624 ATP binding site [chemical binding]; other site 355276003625 Walker B motif; other site 355276003626 arginine finger; other site 355276003627 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 355276003628 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 355276003629 Protein of unknown function DUF45; Region: DUF45; cl00636 355276003630 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 355276003631 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003632 Family description; Region: UvrD_C_2; cl15862 355276003633 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 355276003634 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 355276003635 active site 355276003636 FMN binding site [chemical binding]; other site 355276003637 2,4-decadienoyl-CoA binding site; other site 355276003638 catalytic residue [active] 355276003639 4Fe-4S cluster binding site [ion binding]; other site 355276003640 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 355276003641 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355276003642 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 355276003643 amidase catalytic site [active] 355276003644 Zn binding residues [ion binding]; other site 355276003645 substrate binding site [chemical binding]; other site 355276003646 2-isopropylmalate synthase; Validated; Region: PRK00915 355276003647 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 355276003648 active site 355276003649 catalytic residues [active] 355276003650 metal binding site [ion binding]; metal-binding site 355276003651 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 355276003652 Cation efflux family; Region: Cation_efflux; cl00316 355276003653 phosphodiesterase; Provisional; Region: PRK12704 355276003654 Violaxanthin de-epoxidase (VDE); Region: VDE; cl06253 355276003655 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276003656 ligand binding site [chemical binding]; other site 355276003657 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 355276003658 MgtE intracellular N domain; Region: MgtE_N; cl15244 355276003659 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 355276003660 Divalent cation transporter; Region: MgtE; cl00786 355276003661 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276003662 PAS fold; Region: PAS_4; pfam08448 355276003663 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 355276003664 dimer interface [polypeptide binding]; other site 355276003665 phosphorylation site [posttranslational modification] 355276003666 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276003667 ATP binding site [chemical binding]; other site 355276003668 Mg2+ binding site [ion binding]; other site 355276003669 G-X-G motif; other site 355276003670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003671 active site 355276003672 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355276003673 phosphorylation site [posttranslational modification] 355276003674 intermolecular recognition site; other site 355276003675 dimerization interface [polypeptide binding]; other site 355276003676 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 355276003677 dimer interface [polypeptide binding]; other site 355276003678 phosphorylation site [posttranslational modification] 355276003679 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276003680 ATP binding site [chemical binding]; other site 355276003681 Mg2+ binding site [ion binding]; other site 355276003682 G-X-G motif; other site 355276003683 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 355276003684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003685 active site 355276003686 phosphorylation site [posttranslational modification] 355276003687 intermolecular recognition site; other site 355276003688 dimerization interface [polypeptide binding]; other site 355276003689 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 355276003690 dimer interface [polypeptide binding]; other site 355276003691 phosphorylation site [posttranslational modification] 355276003692 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276003693 ATP binding site [chemical binding]; other site 355276003694 G-X-G motif; other site 355276003695 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 355276003696 AMP binding site [chemical binding]; other site 355276003697 metal binding site [ion binding]; metal-binding site 355276003698 active site 355276003699 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 355276003700 GatB domain; Region: GatB_Yqey; cl11497 355276003701 CHC2 zinc finger; Region: zf-CHC2; cl15369 355276003702 DNA primase; Validated; Region: dnaG; PRK05667 355276003703 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 355276003704 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 355276003705 active site 355276003706 metal binding site [ion binding]; metal-binding site 355276003707 interdomain interaction site; other site 355276003708 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 355276003709 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 355276003710 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 355276003711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276003712 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 355276003713 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 355276003714 DNA binding residues [nucleotide binding] 355276003715 glycerol-3-phosphate dehydrogenase; Region: PLN02464 355276003716 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 355276003717 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 355276003718 active site 355276003719 HIGH motif; other site 355276003720 dimer interface [polypeptide binding]; other site 355276003721 KMSKS motif; other site 355276003722 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 355276003723 NodB motif; other site 355276003724 active site 355276003725 catalytic site [active] 355276003726 metal binding site [ion binding]; metal-binding site 355276003727 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 355276003728 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 355276003729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276003730 catalytic residue [active] 355276003731 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276003732 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 355276003733 TPR motif; other site 355276003734 binding surface 355276003735 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 355276003736 binding surface 355276003737 TPR motif; other site 355276003738 TPR repeat; Region: TPR_11; pfam13414 355276003739 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 355276003740 binding surface 355276003741 TPR motif; other site 355276003742 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 355276003743 binding surface 355276003744 TPR motif; other site 355276003745 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276003746 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355276003747 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 355276003748 substrate binding site [chemical binding]; other site 355276003749 oxyanion hole (OAH) forming residues; other site 355276003750 trimer interface [polypeptide binding]; other site 355276003751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276003752 Helix-turn-helix domains; Region: HTH; cl00088 355276003753 Protein of unknown function (DUF962); Region: DUF962; cl01879 355276003754 YacP-like NYN domain; Region: NYN_YacP; cl01491 355276003755 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276003756 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355276003757 NAD-dependent deacetylase; Provisional; Region: PRK00481 355276003758 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 355276003759 NAD+ binding site [chemical binding]; other site 355276003760 substrate binding site [chemical binding]; other site 355276003761 Zn binding site [ion binding]; other site 355276003762 DJ-1 family protein; Region: not_thiJ; TIGR01383 355276003763 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 355276003764 conserved cys residue [active] 355276003765 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 355276003766 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 355276003767 active site 355276003768 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 355276003769 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 355276003770 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 355276003771 active site 355276003772 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 355276003773 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 355276003774 tandem repeat interface [polypeptide binding]; other site 355276003775 oligomer interface [polypeptide binding]; other site 355276003776 active site residues [active] 355276003777 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 355276003778 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 355276003779 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 355276003780 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 355276003781 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276003782 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 355276003783 Integrase core domain; Region: rve_3; cl15866 355276003784 Cell division protein FtsA; Region: FtsA; cl11496 355276003785 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 355276003786 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 355276003787 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355276003788 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 355276003789 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 355276003790 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 355276003791 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 355276003792 general secretion pathway protein F; Region: GspF; TIGR02120 355276003793 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 355276003794 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 355276003795 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 355276003796 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 355276003797 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 355276003798 Walker A motif; other site 355276003799 ATP binding site [chemical binding]; other site 355276003800 Walker B motif; other site 355276003801 phage assembly protein; Region: IV; PHA00019 355276003802 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 355276003803 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 355276003804 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 355276003805 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 355276003806 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 355276003807 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 355276003808 putative peptidoglycan binding site; other site 355276003809 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276003810 Restriction endonuclease; Region: Mrr_cat; cl00516 355276003811 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 355276003812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355276003813 Zn2+ binding site [ion binding]; other site 355276003814 Mg2+ binding site [ion binding]; other site 355276003815 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 355276003816 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 355276003817 RNA/DNA hybrid binding site [nucleotide binding]; other site 355276003818 active site 355276003819 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 355276003820 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 355276003821 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14590 355276003822 RimM N-terminal domain; Region: RimM; pfam01782 355276003823 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 355276003824 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 355276003825 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 355276003826 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 355276003827 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 355276003828 substrate binding site [chemical binding]; other site 355276003829 hexamer interface [polypeptide binding]; other site 355276003830 metal binding site [ion binding]; metal-binding site 355276003831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 355276003832 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 355276003833 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 355276003834 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 355276003835 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 355276003836 putative active site [active] 355276003837 substrate binding site [chemical binding]; other site 355276003838 putative cosubstrate binding site; other site 355276003839 catalytic site [active] 355276003840 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 355276003841 substrate binding site [chemical binding]; other site 355276003842 primosome assembly protein PriA; Validated; Region: PRK05580 355276003843 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 355276003844 ATP binding site [chemical binding]; other site 355276003845 putative Mg++ binding site [ion binding]; other site 355276003846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276003847 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355276003848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276003849 active site 355276003850 phosphorylation site [posttranslational modification] 355276003851 intermolecular recognition site; other site 355276003852 dimerization interface [polypeptide binding]; other site 355276003853 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 355276003854 Walker A motif; other site 355276003855 ATP binding site [chemical binding]; other site 355276003856 Walker B motif; other site 355276003857 arginine finger; other site 355276003858 Helix-turn-helix domains; Region: HTH; cl00088 355276003859 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 355276003860 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 355276003861 dimerization interface [polypeptide binding]; other site 355276003862 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 355276003863 dimer interface [polypeptide binding]; other site 355276003864 phosphorylation site [posttranslational modification] 355276003865 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276003866 ATP binding site [chemical binding]; other site 355276003867 Mg2+ binding site [ion binding]; other site 355276003868 G-X-G motif; other site 355276003869 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 355276003870 regulatory protein interface [polypeptide binding]; other site 355276003871 active site 355276003872 regulatory phosphorylation site [posttranslational modification]; other site 355276003873 HPr kinase/phosphorylase; Provisional; Region: PRK05428 355276003874 DRTGG domain; Region: DRTGG; cl12147 355276003875 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 355276003876 Hpr binding site; other site 355276003877 active site 355276003878 homohexamer subunit interaction site [polypeptide binding]; other site 355276003879 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 355276003880 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 355276003881 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 355276003882 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 355276003883 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 355276003884 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 355276003885 Walker A/P-loop; other site 355276003886 ATP binding site [chemical binding]; other site 355276003887 Q-loop/lid; other site 355276003888 ABC transporter signature motif; other site 355276003889 Walker B; other site 355276003890 D-loop; other site 355276003891 H-loop/switch region; other site 355276003892 OstA-like protein; Region: OstA; cl00844 355276003893 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 355276003894 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 355276003895 NeuB family; Region: NeuB; cl00496 355276003896 CTP synthetase; Validated; Region: pyrG; PRK05380 355276003897 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 355276003898 Catalytic site [active] 355276003899 active site 355276003900 UTP binding site [chemical binding]; other site 355276003901 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 355276003902 active site 355276003903 putative oxyanion hole; other site 355276003904 catalytic triad [active] 355276003905 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355276003906 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 355276003907 active site 355276003908 nucleotide binding site [chemical binding]; other site 355276003909 HIGH motif; other site 355276003910 KMSKS motif; other site 355276003911 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 355276003912 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 355276003913 putative ribose interaction site [chemical binding]; other site 355276003914 putative ADP binding site [chemical binding]; other site 355276003915 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 355276003916 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 355276003917 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 355276003918 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 355276003919 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 355276003920 active site 355276003921 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 355276003922 chromosome segregation protein; Provisional; Region: PRK03918 355276003923 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 355276003924 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 355276003925 S-adenosylmethionine binding site [chemical binding]; other site 355276003926 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 355276003927 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 355276003928 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 355276003929 Walker A/P-loop; other site 355276003930 ATP binding site [chemical binding]; other site 355276003931 Q-loop/lid; other site 355276003932 ABC transporter signature motif; other site 355276003933 Walker B; other site 355276003934 D-loop; other site 355276003935 H-loop/switch region; other site 355276003936 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355276003937 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 355276003938 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 355276003939 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 355276003940 Phospholipid methyltransferase; Region: PEMT; cl00763 355276003941 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 355276003942 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355276003943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276003944 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276003945 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276003946 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 355276003947 Low-spin heme binding site [chemical binding]; other site 355276003948 D-pathway; other site 355276003949 Putative water exit pathway; other site 355276003950 Binuclear center (active site) [active] 355276003951 K-pathway; other site 355276003952 Putative proton exit pathway; other site 355276003953 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 355276003954 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 355276003955 Cytochrome c; Region: Cytochrom_C; cl11414 355276003956 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 355276003957 4Fe-4S binding domain; Region: Fer4_5; pfam12801 355276003958 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 355276003959 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 355276003960 FixH; Region: FixH; cl01254 355276003961 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 355276003962 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355276003963 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 355276003964 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355276003965 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276003966 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 355276003967 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 355276003968 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355276003969 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276003970 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355276003971 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 355276003972 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 355276003973 Int/Topo IB signature motif; other site 355276003974 active site 355276003975 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276003976 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 355276003977 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276003978 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 355276003979 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 355276003980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276003981 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355276003982 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 355276003983 glycogen binding site [chemical binding]; other site 355276003984 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 355276003985 transcriptional regulator ICP4; Provisional; Region: PHA03307 355276003986 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 355276003987 binding surface 355276003988 TPR motif; other site 355276003989 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276003990 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 355276003991 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 355276003992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276003993 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 355276003994 L-serine binding site [chemical binding]; other site 355276003995 ACT domain interface; other site 355276003996 PilZ domain; Region: PilZ; cl01260 355276003997 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 355276003998 CoenzymeA binding site [chemical binding]; other site 355276003999 subunit interaction site [polypeptide binding]; other site 355276004000 PHB binding site; other site 355276004001 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 355276004002 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276004003 Domain of unknown function (DUF309); Region: DUF309; cl00667 355276004004 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 355276004005 active site 355276004006 catalytic tetrad [active] 355276004007 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 355276004008 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 355276004009 putative Iron-sulfur protein interface [polypeptide binding]; other site 355276004010 proximal heme binding site [chemical binding]; other site 355276004011 distal heme binding site [chemical binding]; other site 355276004012 putative dimer interface [polypeptide binding]; other site 355276004013 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 355276004014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004015 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355276004016 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 355276004017 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 355276004018 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 355276004019 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 355276004020 GTP-binding protein LepA; Provisional; Region: PRK05433 355276004021 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 355276004022 G1 box; other site 355276004023 putative GEF interaction site [polypeptide binding]; other site 355276004024 GTP/Mg2+ binding site [chemical binding]; other site 355276004025 Switch I region; other site 355276004026 G2 box; other site 355276004027 G3 box; other site 355276004028 Switch II region; other site 355276004029 G4 box; other site 355276004030 G5 box; other site 355276004031 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 355276004032 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 355276004033 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 355276004034 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 355276004035 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 355276004036 anti sigma factor interaction site; other site 355276004037 regulatory phosphorylation site [posttranslational modification]; other site 355276004038 Spc7 kinetochore protein; Region: Spc7; pfam08317 355276004039 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 355276004040 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 355276004041 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 355276004042 active site 355276004043 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 355276004044 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 355276004045 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 355276004046 dimer interface [polypeptide binding]; other site 355276004047 putative anticodon binding site; other site 355276004048 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 355276004049 motif 1; other site 355276004050 active site 355276004051 motif 2; other site 355276004052 motif 3; other site 355276004053 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 355276004054 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 355276004055 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 355276004056 thiamine phosphate binding site [chemical binding]; other site 355276004057 active site 355276004058 pyrophosphate binding site [ion binding]; other site 355276004059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 355276004060 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 355276004061 inosine-5'-monophosphate dehydrogenase; Provisional; Region: PTZ00314 355276004062 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 355276004063 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_2; cd04602 355276004064 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 355276004065 active site 355276004066 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355276004067 O-Antigen ligase; Region: Wzy_C; cl04850 355276004068 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 355276004069 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 355276004070 active site 355276004071 NTP binding site [chemical binding]; other site 355276004072 metal binding triad [ion binding]; metal-binding site 355276004073 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 355276004074 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355276004075 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 355276004076 RNA/DNA hybrid binding site [nucleotide binding]; other site 355276004077 active site 355276004078 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 355276004079 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 355276004080 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276004081 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 355276004082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004083 NAD(P) binding site [chemical binding]; other site 355276004084 active site 355276004085 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 355276004086 FAD binding domain; Region: FAD_binding_4; pfam01565 355276004087 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 355276004088 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355276004089 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355276004090 Ligand binding site; other site 355276004091 Putative Catalytic site; other site 355276004092 DXD motif; other site 355276004093 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 355276004094 non-specific DNA binding site [nucleotide binding]; other site 355276004095 salt bridge; other site 355276004096 sequence-specific DNA binding site [nucleotide binding]; other site 355276004097 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 355276004098 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 355276004099 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 355276004100 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355276004101 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 355276004102 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 355276004103 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 355276004104 nucleotide binding region [chemical binding]; other site 355276004105 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 355276004106 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 355276004107 catalytic triad [active] 355276004108 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 355276004109 catalytic residues [active] 355276004110 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 355276004111 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 355276004112 Clp protease; Region: CLP_protease; pfam00574 355276004113 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 355276004114 oligomer interface [polypeptide binding]; other site 355276004115 active site residues [active] 355276004116 Septum formation initiator; Region: DivIC; cl11433 355276004117 enolase; Provisional; Region: eno; PRK00077 355276004118 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 355276004119 dimer interface [polypeptide binding]; other site 355276004120 metal binding site [ion binding]; metal-binding site 355276004121 substrate binding pocket [chemical binding]; other site 355276004122 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 355276004123 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004125 active site 355276004126 phosphorylation site [posttranslational modification] 355276004127 intermolecular recognition site; other site 355276004128 dimerization interface [polypeptide binding]; other site 355276004129 HEAT repeats; Region: HEAT_2; pfam13646 355276004130 HEAT repeats; Region: HEAT_2; pfam13646 355276004131 HEAT repeats; Region: HEAT_2; pfam13646 355276004132 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276004133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004134 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004135 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004136 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 355276004137 Bifunctional nuclease; Region: DNase-RNase; cl00553 355276004138 UvrB/uvrC motif; Region: UVR; pfam02151 355276004139 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355276004140 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 355276004141 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 355276004142 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 355276004143 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276004144 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276004145 active site 355276004146 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276004147 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 355276004148 ligand binding site [chemical binding]; other site 355276004149 flexible hinge region; other site 355276004150 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 355276004151 ligand binding site [chemical binding]; other site 355276004152 flexible hinge region; other site 355276004153 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 355276004154 catalytic residues [active] 355276004155 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 355276004156 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 355276004157 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276004158 Bacterial transcriptional activator domain; Region: BTAD; smart01043 355276004159 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355276004160 RNA/DNA binding site [nucleotide binding]; other site 355276004161 RRM dimerization site [polypeptide binding]; other site 355276004162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 355276004163 MORN repeat; Region: MORN; cl14787 355276004164 MORN repeat; Region: MORN; cl14787 355276004165 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 355276004166 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 355276004167 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 355276004168 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 355276004169 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 355276004170 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 355276004171 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 355276004172 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 355276004173 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 355276004174 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 355276004175 tetramer interface [polypeptide binding]; other site 355276004176 heme binding pocket [chemical binding]; other site 355276004177 NADPH binding site [chemical binding]; other site 355276004178 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 355276004179 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276004180 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355276004181 metal binding site 2 [ion binding]; metal-binding site 355276004182 putative DNA binding helix; other site 355276004183 metal binding site 1 [ion binding]; metal-binding site 355276004184 dimer interface [polypeptide binding]; other site 355276004185 structural Zn2+ binding site [ion binding]; other site 355276004186 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 355276004187 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 355276004188 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355276004189 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 355276004190 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 355276004191 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 355276004192 S-adenosylmethionine binding site [chemical binding]; other site 355276004193 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355276004194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004195 active site 355276004196 phosphorylation site [posttranslational modification] 355276004197 intermolecular recognition site; other site 355276004198 dimerization interface [polypeptide binding]; other site 355276004199 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276004200 PAS domain; Region: PAS_9; pfam13426 355276004201 putative active site [active] 355276004202 heme pocket [chemical binding]; other site 355276004203 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355276004204 cyclase homology domain; Region: CHD; cd07302 355276004205 nucleotidyl binding site; other site 355276004206 metal binding site [ion binding]; metal-binding site 355276004207 dimer interface [polypeptide binding]; other site 355276004208 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 355276004209 Clp amino terminal domain; Region: Clp_N; pfam02861 355276004210 Clp amino terminal domain; Region: Clp_N; pfam02861 355276004211 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 355276004212 Walker A motif; other site 355276004213 ATP binding site [chemical binding]; other site 355276004214 Walker B motif; other site 355276004215 arginine finger; other site 355276004216 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 355276004217 Walker A motif; other site 355276004218 ATP binding site [chemical binding]; other site 355276004219 Walker B motif; other site 355276004220 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 355276004221 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 355276004222 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 355276004223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004224 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 355276004225 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 355276004226 catalytic site [active] 355276004227 G-X2-G-X-G-K; other site 355276004228 Domain of unknown function (DUF370); Region: DUF370; cl00898 355276004229 Protein of unknown function (DUF342); Region: DUF342; pfam03961 355276004230 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 355276004231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276004232 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 355276004233 DNA binding residues [nucleotide binding] 355276004234 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 355276004235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004236 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 355276004237 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12724 355276004238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004239 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 355276004240 FHIPEP family; Region: FHIPEP; pfam00771 355276004241 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12773 355276004242 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 355276004243 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 355276004244 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 355276004245 FliP family; Region: FliP; cl00593 355276004246 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 355276004247 flagellar motor switch protein; Reviewed; Region: PRK06782 355276004248 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 355276004249 Protein of unknown function (DUF971); Region: DUF971; cl01414 355276004250 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 355276004251 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 355276004252 Head domain of virus receptor-binding proteins (RBP); Region: RBP-H; cl07506 355276004253 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355276004254 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276004255 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276004256 PAS domain; Region: PAS_9; pfam13426 355276004257 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276004258 classical (c) SDRs; Region: SDR_c; cd05233 355276004259 short chain dehydrogenase; Provisional; Region: PRK06181 355276004260 NAD(P) binding site [chemical binding]; other site 355276004261 active site 355276004262 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 355276004263 C-terminal domain interface [polypeptide binding]; other site 355276004264 GSH binding site (G-site) [chemical binding]; other site 355276004265 dimer interface [polypeptide binding]; other site 355276004266 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 355276004267 putative N-terminal domain interface [polypeptide binding]; other site 355276004268 putative dimer interface [polypeptide binding]; other site 355276004269 putative substrate binding pocket (H-site) [chemical binding]; other site 355276004270 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 355276004271 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 355276004272 active site 355276004273 Zn binding site [ion binding]; other site 355276004274 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 355276004275 putative active site [active] 355276004276 putative catalytic site [active] 355276004277 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 355276004278 active site 2 [active] 355276004279 active site 1 [active] 355276004280 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276004281 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 355276004282 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 355276004283 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 355276004284 PYR/PP interface [polypeptide binding]; other site 355276004285 dimer interface [polypeptide binding]; other site 355276004286 TPP binding site [chemical binding]; other site 355276004287 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 355276004288 S-adenosylmethionine synthetase; Validated; Region: PRK05250 355276004289 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 355276004290 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 355276004291 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 355276004292 ParB-like nuclease domain; Region: ParBc; cl02129 355276004293 Surface lipoprotein of Spirochaetales order; Region: Lipl32; pfam12103 355276004294 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276004295 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276004296 active site 355276004297 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 355276004298 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 355276004299 putative dimer interface [polypeptide binding]; other site 355276004300 putative anticodon binding site; other site 355276004301 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 355276004302 homodimer interface [polypeptide binding]; other site 355276004303 motif 1; other site 355276004304 motif 2; other site 355276004305 active site 355276004306 motif 3; other site 355276004307 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14177 355276004308 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 355276004309 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 355276004310 homodimer interface [polypeptide binding]; other site 355276004311 NADP binding site [chemical binding]; other site 355276004312 substrate binding site [chemical binding]; other site 355276004313 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 355276004314 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 355276004315 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 355276004316 active site 355276004317 HIGH motif; other site 355276004318 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 355276004319 KMSKS motif; other site 355276004320 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 355276004321 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 355276004322 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 355276004323 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355276004324 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 355276004325 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 355276004326 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 355276004327 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 355276004328 substrate binding site [chemical binding]; other site 355276004329 glutamase interaction surface [polypeptide binding]; other site 355276004330 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 355276004331 Amidase; Region: Amidase; cl11426 355276004332 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 355276004333 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 355276004334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004335 Bacterial sugar transferase; Region: Bac_transf; cl00939 355276004336 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 355276004337 Bacitracin resistance protein BacA; Region: BacA; cl00858 355276004338 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 355276004339 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 355276004340 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 355276004341 ATP binding site [chemical binding]; other site 355276004342 putative Mg++ binding site [ion binding]; other site 355276004343 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 355276004344 nucleotide binding region [chemical binding]; other site 355276004345 ATP-binding site [chemical binding]; other site 355276004346 TRCF domain; Region: TRCF; cl04088 355276004347 Pantoate-beta-alanine ligase; Region: PanC; cd00560 355276004348 pantoate--beta-alanine ligase; Region: panC; TIGR00018 355276004349 active site 355276004350 ATP-binding site [chemical binding]; other site 355276004351 pantoate-binding site; other site 355276004352 HXXH motif; other site 355276004353 histidinol dehydrogenase; Region: hisD; TIGR00069 355276004354 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 355276004355 NAD binding site [chemical binding]; other site 355276004356 dimerization interface [polypeptide binding]; other site 355276004357 product binding site; other site 355276004358 substrate binding site [chemical binding]; other site 355276004359 zinc binding site [ion binding]; other site 355276004360 catalytic residues [active] 355276004361 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 355276004362 putative active site [active] 355276004363 putative DNA binding site [nucleotide binding]; other site 355276004364 putative phosphate binding site [ion binding]; other site 355276004365 putative catalytic site [active] 355276004366 metal binding site A [ion binding]; metal-binding site 355276004367 putative AP binding site [nucleotide binding]; other site 355276004368 putative metal binding site B [ion binding]; other site 355276004369 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004371 active site 355276004372 phosphorylation site [posttranslational modification] 355276004373 intermolecular recognition site; other site 355276004374 dimerization interface [polypeptide binding]; other site 355276004375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355276004376 metal binding site [ion binding]; metal-binding site 355276004377 active site 355276004378 I-site; other site 355276004379 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 355276004380 dimerization interface [polypeptide binding]; other site 355276004381 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 355276004382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004383 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004384 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004385 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355276004386 RNA/DNA binding site [nucleotide binding]; other site 355276004387 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 355276004388 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 355276004389 dimer interface [polypeptide binding]; other site 355276004390 phosphorylation site [posttranslational modification] 355276004391 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276004392 ATP binding site [chemical binding]; other site 355276004393 Mg2+ binding site [ion binding]; other site 355276004394 G-X-G motif; other site 355276004395 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276004396 PAS domain; Region: PAS_9; pfam13426 355276004397 putative active site [active] 355276004398 heme pocket [chemical binding]; other site 355276004399 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276004400 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276004401 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 355276004402 ligand binding site [chemical binding]; other site 355276004403 flexible hinge region; other site 355276004404 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355276004405 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276004406 PAS domain; Region: PAS_9; pfam13426 355276004407 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 355276004408 dimer interface [polypeptide binding]; other site 355276004409 phosphorylation site [posttranslational modification] 355276004410 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276004411 ATP binding site [chemical binding]; other site 355276004412 Mg2+ binding site [ion binding]; other site 355276004413 G-X-G motif; other site 355276004414 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 355276004415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004416 phosphorylation site [posttranslational modification] 355276004417 intermolecular recognition site; other site 355276004418 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004420 active site 355276004421 phosphorylation site [posttranslational modification] 355276004422 intermolecular recognition site; other site 355276004423 dimerization interface [polypeptide binding]; other site 355276004424 PAS domain S-box; Region: sensory_box; TIGR00229 355276004425 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276004426 putative active site [active] 355276004427 heme pocket [chemical binding]; other site 355276004428 PAS fold; Region: PAS_4; pfam08448 355276004429 Histidine kinase; Region: HisKA_2; cl06527 355276004430 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276004431 ATP binding site [chemical binding]; other site 355276004432 Mg2+ binding site [ion binding]; other site 355276004433 G-X-G motif; other site 355276004434 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 355276004435 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004436 Walker A/P-loop; other site 355276004437 ATP binding site [chemical binding]; other site 355276004438 Q-loop/lid; other site 355276004439 ABC transporter signature motif; other site 355276004440 Walker B; other site 355276004441 D-loop; other site 355276004442 H-loop/switch region; other site 355276004443 ABC transporter; Region: ABC_tran_2; pfam12848 355276004444 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 355276004445 FecR protein; Region: FecR; pfam04773 355276004446 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 355276004447 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 355276004448 dimerization interface [polypeptide binding]; other site 355276004449 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355276004450 cyclase homology domain; Region: CHD; cd07302 355276004451 nucleotidyl binding site; other site 355276004452 metal binding site [ion binding]; metal-binding site 355276004453 dimer interface [polypeptide binding]; other site 355276004454 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 355276004455 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 355276004456 active site 355276004457 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004459 active site 355276004460 phosphorylation site [posttranslational modification] 355276004461 intermolecular recognition site; other site 355276004462 dimerization interface [polypeptide binding]; other site 355276004463 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276004464 sensory histidine kinase AtoS; Provisional; Region: PRK11360 355276004465 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 355276004466 dimer interface [polypeptide binding]; other site 355276004467 phosphorylation site [posttranslational modification] 355276004468 FOG: CBS domain [General function prediction only]; Region: COG0517 355276004469 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 355276004470 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355276004471 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 355276004472 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 355276004473 Substrate binding site; other site 355276004474 Cupin domain; Region: Cupin_2; cl09118 355276004475 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 355276004476 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 355276004477 Sm1 motif; other site 355276004478 intra - hexamer interaction site; other site 355276004479 inter - hexamer interaction site [polypeptide binding]; other site 355276004480 nucleotide binding pocket [chemical binding]; other site 355276004481 Sm2 motif; other site 355276004482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004483 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 355276004484 TIGR02300 family protein; Region: FYDLN_acid 355276004485 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 355276004486 active site 355276004487 hydrophilic channel; other site 355276004488 dimerization interface [polypeptide binding]; other site 355276004489 catalytic residues [active] 355276004490 active site lid [active] 355276004491 C-terminal peptidase (prc); Region: prc; TIGR00225 355276004492 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 355276004493 protein binding site [polypeptide binding]; other site 355276004494 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 355276004495 Catalytic dyad [active] 355276004496 L-aspartate oxidase; Provisional; Region: PRK09077 355276004497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004498 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 355276004499 Surface antigen; Region: Bac_surface_Ag; cl03097 355276004500 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355276004501 Surface antigen; Region: Bac_surface_Ag; cl03097 355276004502 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 355276004503 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 355276004504 carboxyltransferase (CT) interaction site; other site 355276004505 biotinylation site [posttranslational modification]; other site 355276004506 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 355276004507 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355276004508 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276004509 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 355276004510 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 355276004511 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276004512 putative acyl-acceptor binding pocket; other site 355276004513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 355276004514 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 355276004515 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 355276004516 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 355276004517 dimerization interface 3.5A [polypeptide binding]; other site 355276004518 active site 355276004519 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 355276004520 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 355276004521 FMN binding site [chemical binding]; other site 355276004522 substrate binding site [chemical binding]; other site 355276004523 putative catalytic residue [active] 355276004524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004525 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004526 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004527 Predicted transcriptional regulator [Transcription]; Region: COG1959 355276004528 Helix-turn-helix domains; Region: HTH; cl00088 355276004529 Helix-turn-helix domains; Region: HTH; cl00088 355276004530 Protein of unknown function (DUF419); Region: DUF419; cl15265 355276004531 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276004532 MepB protein; Region: MepB; cl01985 355276004533 Protein of unknown function (DUF445); Region: DUF445; pfam04286 355276004534 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355276004535 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 355276004536 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 355276004537 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004538 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004539 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004540 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 355276004541 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 355276004542 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355276004543 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355276004544 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 355276004545 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 355276004546 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276004547 rod shape-determining protein MreD; Region: MreD; cl01087 355276004548 rod shape-determining protein MreC; Provisional; Region: PRK13922 355276004549 rod shape-determining protein MreC; Region: MreC; pfam04085 355276004550 rod shape-determining protein MreB; Provisional; Region: PRK13927 355276004551 Cell division protein FtsA; Region: FtsA; cl11496 355276004552 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 355276004553 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 355276004554 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 355276004555 A new structural DNA glycosylase; Region: AlkD_like; cd06561 355276004556 active site 355276004557 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276004558 GAF domain; Region: GAF_2; pfam13185 355276004559 GAF domain; Region: GAF; cl15785 355276004560 GAF domain; Region: GAF_2; pfam13185 355276004561 GAF domain; Region: GAF; cl15785 355276004562 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 355276004563 SLBB domain; Region: SLBB; pfam10531 355276004564 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13444 355276004565 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 355276004566 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 355276004567 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 355276004568 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 355276004569 alpha subunit interaction interface [polypeptide binding]; other site 355276004570 Walker A motif; other site 355276004571 ATP binding site [chemical binding]; other site 355276004572 Walker B motif; other site 355276004573 inhibitor binding site; inhibition site 355276004574 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 355276004575 ATP synthase; Region: ATP-synt; cl00365 355276004576 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 355276004577 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 355276004578 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 355276004579 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 355276004580 beta subunit interaction interface [polypeptide binding]; other site 355276004581 Walker A motif; other site 355276004582 ATP binding site [chemical binding]; other site 355276004583 Walker B motif; other site 355276004584 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 355276004585 Plant ATP synthase F0; Region: YMF19; cl07975 355276004586 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 355276004587 Plant ATP synthase F0; Region: YMF19; cl07975 355276004588 ATP synthase A chain; Region: ATP-synt_A; cl00413 355276004589 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 355276004590 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 355276004591 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 355276004592 Catalytic site [active] 355276004593 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 355276004594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276004595 Helix-turn-helix domains; Region: HTH; cl00088 355276004596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004597 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004598 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004599 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276004600 glutamine synthetase, type I; Region: GlnA; TIGR00653 355276004601 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 355276004602 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 355276004603 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 355276004604 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 355276004605 Walker A/P-loop; other site 355276004606 ATP binding site [chemical binding]; other site 355276004607 Q-loop/lid; other site 355276004608 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 355276004609 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 355276004610 ABC transporter signature motif; other site 355276004611 Walker B; other site 355276004612 D-loop; other site 355276004613 H-loop/switch region; other site 355276004614 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 355276004615 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 355276004616 GTP-binding protein Der; Reviewed; Region: PRK00093 355276004617 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 355276004618 G1 box; other site 355276004619 GTP/Mg2+ binding site [chemical binding]; other site 355276004620 Switch I region; other site 355276004621 G2 box; other site 355276004622 Switch II region; other site 355276004623 G3 box; other site 355276004624 G4 box; other site 355276004625 G5 box; other site 355276004626 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 355276004627 G1 box; other site 355276004628 GTP/Mg2+ binding site [chemical binding]; other site 355276004629 Switch I region; other site 355276004630 G2 box; other site 355276004631 G3 box; other site 355276004632 Switch II region; other site 355276004633 G4 box; other site 355276004634 G5 box; other site 355276004635 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 355276004636 SmpB-tmRNA interface; other site 355276004637 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004638 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 355276004639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276004640 aspartate aminotransferase; Provisional; Region: PRK05764 355276004641 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 355276004642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276004643 homodimer interface [polypeptide binding]; other site 355276004644 catalytic residue [active] 355276004645 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 355276004646 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 355276004647 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 355276004648 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355276004649 Walker A/P-loop; other site 355276004650 ATP binding site [chemical binding]; other site 355276004651 Q-loop/lid; other site 355276004652 ABC transporter signature motif; other site 355276004653 Walker B; other site 355276004654 D-loop; other site 355276004655 H-loop/switch region; other site 355276004656 Helix-turn-helix domains; Region: HTH; cl00088 355276004657 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355276004658 Sulfatase; Region: Sulfatase; cl10460 355276004659 proline aminopeptidase P II; Provisional; Region: PRK10879 355276004660 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 355276004661 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 355276004662 active site 355276004663 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 355276004664 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 355276004665 putative active site [active] 355276004666 Acetyl-CoA acetyltransferase [Lipid metabolism]; Region: PaaJ; COG0183 355276004667 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 355276004668 active site 355276004669 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 355276004670 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 355276004671 heme binding site [chemical binding]; other site 355276004672 ferroxidase pore; other site 355276004673 ferroxidase diiron center [ion binding]; other site 355276004674 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 355276004675 THUMP domain; Region: THUMP; cl12076 355276004676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004677 acetylglutamate kinase; Provisional; Region: PRK04531 355276004678 Ribosome-binding factor A; Region: RBFA; cl00542 355276004679 DUF619 domain of various N-acetylglutamate Kinases and N-acetylglutamate Synthases; Region: DUF619-like; cl14605 355276004680 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 355276004681 FeS assembly protein SufB; Region: sufB; TIGR01980 355276004682 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 355276004683 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 355276004684 dimer interface [polypeptide binding]; other site 355276004685 decamer (pentamer of dimers) interface [polypeptide binding]; other site 355276004686 catalytic triad [active] 355276004687 peroxidatic and resolving cysteines [active] 355276004688 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 355276004689 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276004690 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276004691 dimer interface [polypeptide binding]; other site 355276004692 putative CheW interface [polypeptide binding]; other site 355276004693 YceI-like domain; Region: YceI; cl01001 355276004694 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355276004695 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 355276004696 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 355276004697 Ligand binding site; other site 355276004698 Putative Catalytic site; other site 355276004699 DXD motif; other site 355276004700 GtrA-like protein; Region: GtrA; cl00971 355276004701 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 355276004702 CoenzymeA binding site [chemical binding]; other site 355276004703 subunit interaction site [polypeptide binding]; other site 355276004704 PHB binding site; other site 355276004705 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004707 active site 355276004708 phosphorylation site [posttranslational modification] 355276004709 intermolecular recognition site; other site 355276004710 dimerization interface [polypeptide binding]; other site 355276004711 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 355276004712 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 355276004713 dimer interface [polypeptide binding]; other site 355276004714 phosphorylation site [posttranslational modification] 355276004715 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276004716 ATP binding site [chemical binding]; other site 355276004717 Mg2+ binding site [ion binding]; other site 355276004718 G-X-G motif; other site 355276004719 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004721 active site 355276004722 phosphorylation site [posttranslational modification] 355276004723 intermolecular recognition site; other site 355276004724 dimerization interface [polypeptide binding]; other site 355276004725 PAS domain S-box; Region: sensory_box; TIGR00229 355276004726 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276004727 putative active site [active] 355276004728 heme pocket [chemical binding]; other site 355276004729 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276004730 PAS fold; Region: PAS_4; pfam08448 355276004731 GAF domain; Region: GAF_2; pfam13185 355276004732 GAF domain; Region: GAF; cl15785 355276004733 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276004734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355276004735 putative active site [active] 355276004736 heme pocket [chemical binding]; other site 355276004737 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 355276004738 dimer interface [polypeptide binding]; other site 355276004739 phosphorylation site [posttranslational modification] 355276004740 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276004741 ATP binding site [chemical binding]; other site 355276004742 Mg2+ binding site [ion binding]; other site 355276004743 G-X-G motif; other site 355276004744 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276004745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004746 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004747 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004748 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276004749 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 355276004750 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 355276004751 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 355276004752 active site 355276004753 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 355276004754 PilZ domain; Region: PilZ; cl01260 355276004755 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 355276004756 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276004757 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 355276004758 active site 355276004759 substrate binding site [chemical binding]; other site 355276004760 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 355276004761 FMN binding site [chemical binding]; other site 355276004762 putative catalytic residues [active] 355276004763 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 355276004764 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 355276004765 Ligand Binding Site [chemical binding]; other site 355276004766 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 355276004767 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355276004768 GAF domain; Region: GAF; cl15785 355276004769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355276004770 metal binding site [ion binding]; metal-binding site 355276004771 active site 355276004772 I-site; other site 355276004773 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 355276004774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004775 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 355276004776 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355276004777 catalytic residue [active] 355276004778 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355276004779 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 355276004780 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276004781 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 355276004782 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 355276004783 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 355276004784 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 355276004785 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 355276004786 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 355276004787 TPR repeat; Region: TPR_11; pfam13414 355276004788 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 355276004789 TPR motif; other site 355276004790 binding surface 355276004791 TRL-like protein family; Region: TRL; pfam13146 355276004792 TRL-like protein family; Region: TRL; pfam13146 355276004793 TRL-like protein family; Region: TRL; pfam13146 355276004794 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 355276004795 trehalose synthase; Region: treS_nterm; TIGR02456 355276004796 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 355276004797 Ca binding site [ion binding]; other site 355276004798 active site 355276004799 catalytic site [active] 355276004800 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355276004801 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 355276004802 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355276004803 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355276004804 AIR carboxylase; Region: AIRC; cl00310 355276004805 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 355276004806 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276004807 Flavin Reductases; Region: FlaRed; cl00801 355276004808 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 355276004809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004810 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 355276004811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004812 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 355276004813 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 355276004814 Walker A/P-loop; other site 355276004815 ATP binding site [chemical binding]; other site 355276004816 Q-loop/lid; other site 355276004817 ABC transporter signature motif; other site 355276004818 Walker B; other site 355276004819 D-loop; other site 355276004820 H-loop/switch region; other site 355276004821 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 355276004822 putative carbohydrate binding site [chemical binding]; other site 355276004823 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355276004824 hypothetical protein; Reviewed; Region: PRK00024 355276004825 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 355276004826 MPN+ (JAMM) motif; other site 355276004827 Zinc-binding site [ion binding]; other site 355276004828 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 355276004829 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 355276004830 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 355276004831 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 355276004832 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 355276004833 RNase E interface [polypeptide binding]; other site 355276004834 trimer interface [polypeptide binding]; other site 355276004835 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 355276004836 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 355276004837 RNase E interface [polypeptide binding]; other site 355276004838 trimer interface [polypeptide binding]; other site 355276004839 active site 355276004840 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 355276004841 putative nucleic acid binding region [nucleotide binding]; other site 355276004842 G-X-X-G motif; other site 355276004843 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 355276004844 RNA binding site [nucleotide binding]; other site 355276004845 domain interface; other site 355276004846 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 355276004847 16S/18S rRNA binding site [nucleotide binding]; other site 355276004848 S13e-L30e interaction site [polypeptide binding]; other site 355276004849 25S rRNA binding site [nucleotide binding]; other site 355276004850 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 355276004851 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 355276004852 active site 355276004853 Ribosome-binding factor A; Region: RBFA; cl00542 355276004854 large tegument protein UL36; Provisional; Region: PHA03247 355276004855 translation initiation factor IF-2; Region: IF-2; TIGR00487 355276004856 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 355276004857 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 355276004858 G1 box; other site 355276004859 putative GEF interaction site [polypeptide binding]; other site 355276004860 GTP/Mg2+ binding site [chemical binding]; other site 355276004861 Switch I region; other site 355276004862 G2 box; other site 355276004863 G3 box; other site 355276004864 Switch II region; other site 355276004865 G4 box; other site 355276004866 G5 box; other site 355276004867 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 355276004868 Translation-initiation factor 2; Region: IF-2; pfam11987 355276004869 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 355276004870 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 355276004871 NusA N-terminal domain; Region: NusA_N; pfam08529 355276004872 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 355276004873 RNA binding site [nucleotide binding]; other site 355276004874 homodimer interface [polypeptide binding]; other site 355276004875 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 355276004876 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 355276004877 G-X-X-G motif; other site 355276004878 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 355276004879 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 355276004880 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 355276004881 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 355276004882 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 355276004883 putative substrate binding site [chemical binding]; other site 355276004884 putative ATP binding site [chemical binding]; other site 355276004885 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 355276004886 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 355276004887 ATP phosphoribosyltransferase; Region: HisG; cl15266 355276004888 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276004889 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 355276004890 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 355276004891 RNA binding site [nucleotide binding]; other site 355276004892 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 355276004893 RNA binding site [nucleotide binding]; other site 355276004894 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 355276004895 RNA binding site [nucleotide binding]; other site 355276004896 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 355276004897 RNA binding site [nucleotide binding]; other site 355276004898 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 355276004899 RNA binding site [nucleotide binding]; other site 355276004900 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 355276004901 RNA binding site [nucleotide binding]; other site 355276004902 cytidylate kinase; Provisional; Region: cmk; PRK00023 355276004903 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 355276004904 CMP-binding site; other site 355276004905 The sites determining sugar specificity; other site 355276004906 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 355276004907 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 355276004908 hinge; other site 355276004909 active site 355276004910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004911 Chorismate mutase type II; Region: CM_2; cl00693 355276004912 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 355276004913 Prephenate dehydratase; Region: PDT; pfam00800 355276004914 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 355276004915 putative L-Phe binding site [chemical binding]; other site 355276004916 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 355276004917 ScpA/B protein; Region: ScpA_ScpB; cl00598 355276004918 Response regulator receiver domain; Region: Response_reg; pfam00072 355276004919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004920 active site 355276004921 phosphorylation site [posttranslational modification] 355276004922 intermolecular recognition site; other site 355276004923 dimerization interface [polypeptide binding]; other site 355276004924 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 355276004925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276004926 active site 355276004927 phosphorylation site [posttranslational modification] 355276004928 intermolecular recognition site; other site 355276004929 dimerization interface [polypeptide binding]; other site 355276004930 CheB methylesterase; Region: CheB_methylest; pfam01339 355276004931 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 355276004932 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 355276004933 putative binding surface; other site 355276004934 active site 355276004935 P2 response regulator binding domain; Region: P2; pfam07194 355276004936 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 355276004937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276004938 ATP binding site [chemical binding]; other site 355276004939 Mg2+ binding site [ion binding]; other site 355276004940 G-X-G motif; other site 355276004941 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 355276004942 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 355276004943 Chemotaxis phosphatase CheX; Region: CheX; cl15816 355276004944 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 355276004945 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 355276004946 Cell division protein ZapA; Region: ZapA; cl01146 355276004947 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 355276004948 ribosomal protein L20; Region: rpl20; CHL00068 355276004949 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 355276004950 23S rRNA binding site [nucleotide binding]; other site 355276004951 L21 binding site [polypeptide binding]; other site 355276004952 L13 binding site [polypeptide binding]; other site 355276004953 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 355276004954 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 355276004955 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 355276004956 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 355276004957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276004958 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276004959 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276004960 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 355276004961 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 355276004962 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 355276004963 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 355276004964 active site 355276004965 dimer interface [polypeptide binding]; other site 355276004966 motif 1; other site 355276004967 motif 2; other site 355276004968 motif 3; other site 355276004969 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 355276004970 anticodon binding site; other site 355276004971 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 355276004972 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 355276004973 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 355276004974 catalytic site [active] 355276004975 subunit interface [polypeptide binding]; other site 355276004976 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 355276004977 Fic family protein [Function unknown]; Region: COG3177 355276004978 Fic/DOC family; Region: Fic; cl00960 355276004979 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 355276004980 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 355276004981 TPP-binding site [chemical binding]; other site 355276004982 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 355276004983 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 355276004984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276004985 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355276004986 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 355276004987 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 355276004988 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 355276004989 E3 interaction surface; other site 355276004990 lipoyl attachment site [posttranslational modification]; other site 355276004991 e3 binding domain; Region: E3_binding; pfam02817 355276004992 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 355276004993 Transglycosylase; Region: Transgly; cl07896 355276004994 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276004995 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276004996 Rhomboid family; Region: Rhomboid; cl11446 355276004997 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 355276004998 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 355276004999 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 355276005000 dimer interface [polypeptide binding]; other site 355276005001 glycine-pyridoxal phosphate binding site [chemical binding]; other site 355276005002 active site 355276005003 folate binding site [chemical binding]; other site 355276005004 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355276005005 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 355276005006 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 355276005007 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 355276005008 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355276005009 Uncharacterized conserved protein [Function unknown]; Region: COG3268 355276005010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005011 Integrase core domain; Region: rve; cl01316 355276005012 Integrase core domain; Region: rve_3; cl15866 355276005013 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 355276005014 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 355276005015 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 355276005016 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 355276005017 Catalytic domain of Protein Kinases; Region: PKc; cd00180 355276005018 active site 355276005019 ATP binding site [chemical binding]; other site 355276005020 substrate binding site [chemical binding]; other site 355276005021 activation loop (A-loop); other site 355276005022 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276005023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005024 Predicted ATPase [General function prediction only]; Region: COG3899 355276005025 GAF domain; Region: GAF_2; pfam13185 355276005026 GAF domain; Region: GAF; cl15785 355276005027 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 355276005028 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276005029 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 355276005030 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 355276005031 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 355276005032 Walker A/P-loop; other site 355276005033 ATP binding site [chemical binding]; other site 355276005034 Q-loop/lid; other site 355276005035 ABC transporter signature motif; other site 355276005036 Walker B; other site 355276005037 D-loop; other site 355276005038 H-loop/switch region; other site 355276005039 TOBE-like domain; Region: TOBE_3; pfam12857 355276005040 sulfate transport protein; Provisional; Region: cysT; CHL00187 355276005041 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 355276005042 dimer interface [polypeptide binding]; other site 355276005043 conserved gate region; other site 355276005044 putative PBP binding loops; other site 355276005045 ABC-ATPase subunit interface; other site 355276005046 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 355276005047 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 355276005048 dimer interface [polypeptide binding]; other site 355276005049 conserved gate region; other site 355276005050 putative PBP binding loops; other site 355276005051 ABC-ATPase subunit interface; other site 355276005052 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 355276005053 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 355276005054 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 355276005055 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 355276005056 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 355276005057 dimerization interface [polypeptide binding]; other site 355276005058 active site 355276005059 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 355276005060 Lumazine binding domain; Region: Lum_binding; pfam00677 355276005061 Lumazine binding domain; Region: Lum_binding; pfam00677 355276005062 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 355276005063 catalytic motif [active] 355276005064 Zn binding site [ion binding]; other site 355276005065 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 355276005066 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 355276005067 Protein export membrane protein; Region: SecD_SecF; cl14618 355276005068 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 355276005069 Protein export membrane protein; Region: SecD_SecF; cl14618 355276005070 Preprotein translocase subunit; Region: YajC; cl00806 355276005071 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 355276005072 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 355276005073 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 355276005074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 355276005075 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 355276005076 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 355276005077 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 355276005078 FeS/SAM binding site; other site 355276005079 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 355276005080 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 355276005081 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 355276005082 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 355276005083 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 355276005084 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 355276005085 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 355276005086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005087 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 355276005088 Heat-labile enterotoxin alpha chain; Region: Enterotoxin_a; pfam01375 355276005089 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276005090 Oligomerisation domain; Region: Oligomerisation; cl00519 355276005091 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 355276005092 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 355276005093 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 355276005094 AMP-binding enzyme; Region: AMP-binding; cl15778 355276005095 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276005096 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 355276005097 binding surface 355276005098 TPR motif; other site 355276005099 Restriction endonuclease; Region: Mrr_cat; cl00516 355276005100 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 355276005101 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 355276005102 Walker A/P-loop; other site 355276005103 ATP binding site [chemical binding]; other site 355276005104 Q-loop/lid; other site 355276005105 ABC transporter signature motif; other site 355276005106 Walker B; other site 355276005107 D-loop; other site 355276005108 H-loop/switch region; other site 355276005109 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 355276005110 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 355276005111 catalytic site [active] 355276005112 metal binding site [ion binding]; metal-binding site 355276005113 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 355276005114 nucleotide binding site/active site [active] 355276005115 HIT family signature motif; other site 355276005116 catalytic residue [active] 355276005117 Predicted integral membrane protein [Function unknown]; Region: COG0392 355276005118 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 355276005119 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 355276005120 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355276005121 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355276005122 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276005123 ATP binding site [chemical binding]; other site 355276005124 Mg2+ binding site [ion binding]; other site 355276005125 G-X-G motif; other site 355276005126 cyclase homology domain; Region: CHD; cd07302 355276005127 nucleotidyl binding site; other site 355276005128 metal binding site [ion binding]; metal-binding site 355276005129 dimer interface [polypeptide binding]; other site 355276005130 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 355276005131 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 355276005132 dimer interface [polypeptide binding]; other site 355276005133 active site 355276005134 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 355276005135 Protein phosphatase 2C; Region: PP2C; pfam00481 355276005136 active site 355276005137 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 355276005138 classical (c) SDRs; Region: SDR_c; cd05233 355276005139 NAD(P) binding site [chemical binding]; other site 355276005140 active site 355276005141 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 355276005142 active site 355276005143 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 355276005144 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 355276005145 flagellar assembly protein H; Validated; Region: fliH; PRK05687 355276005146 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 355276005147 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 355276005148 dimer interface [polypeptide binding]; other site 355276005149 active site 355276005150 CoA binding pocket [chemical binding]; other site 355276005151 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 355276005152 Catalytic domain of Protein Kinases; Region: PKc; cd00180 355276005153 active site 355276005154 ATP binding site [chemical binding]; other site 355276005155 substrate binding site [chemical binding]; other site 355276005156 activation loop (A-loop); other site 355276005157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005158 Predicted ATPase [General function prediction only]; Region: COG3899 355276005159 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355276005160 GAF domain; Region: GAF; cl15785 355276005161 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276005162 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276005163 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 355276005164 GAF domain; Region: GAF_2; pfam13185 355276005165 GAF domain; Region: GAF; cl15785 355276005166 Heme NO binding associated; Region: HNOBA; pfam07701 355276005167 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 355276005168 cyclase homology domain; Region: CHD; cd07302 355276005169 nucleotidyl binding site; other site 355276005170 metal binding site [ion binding]; metal-binding site 355276005171 dimer interface [polypeptide binding]; other site 355276005172 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355276005173 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 355276005174 dimer interface [polypeptide binding]; other site 355276005175 substrate binding site [chemical binding]; other site 355276005176 metal binding site [ion binding]; metal-binding site 355276005177 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 355276005178 putative catalytic site [active] 355276005179 putative metal binding site [ion binding]; other site 355276005180 putative phosphate binding site [ion binding]; other site 355276005181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005182 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005183 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005184 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 355276005185 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355276005186 putative active site [active] 355276005187 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276005188 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 355276005189 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 355276005190 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 355276005191 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276005192 motif II; other site 355276005193 TPR repeat; Region: TPR_11; pfam13414 355276005194 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355276005195 PilZ domain; Region: PilZ; cl01260 355276005196 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355276005197 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 355276005198 substrate binding site [chemical binding]; other site 355276005199 oxyanion hole (OAH) forming residues; other site 355276005200 trimer interface [polypeptide binding]; other site 355276005201 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 355276005202 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 355276005203 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276005204 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 355276005205 30S subunit binding site; other site 355276005206 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276005207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005208 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005209 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005210 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 355276005211 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 355276005212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276005213 homodimer interface [polypeptide binding]; other site 355276005214 catalytic residue [active] 355276005215 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005217 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005218 recombination factor protein RarA; Reviewed; Region: PRK13342 355276005219 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 355276005220 Walker A motif; other site 355276005221 ATP binding site [chemical binding]; other site 355276005222 Walker B motif; other site 355276005223 arginine finger; other site 355276005224 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 355276005225 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 355276005226 Leucine rich repeat; Region: LRR_8; pfam13855 355276005227 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355276005228 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 355276005229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276005230 ATP binding site [chemical binding]; other site 355276005231 Mg2+ binding site [ion binding]; other site 355276005232 G-X-G motif; other site 355276005233 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 355276005234 ATP binding site [chemical binding]; other site 355276005235 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 355276005236 Protein of unknown function (DUF1554); Region: DUF1554; pfam07588 355276005237 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 355276005238 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 355276005239 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 355276005240 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 355276005241 substrate binding site [chemical binding]; other site 355276005242 ATP binding site [chemical binding]; other site 355276005243 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 355276005244 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 355276005245 S-adenosylmethionine binding site [chemical binding]; other site 355276005246 Protease prsW family; Region: PrsW-protease; cl15823 355276005247 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355276005248 glycyl-tRNA synthetase; Provisional; Region: PRK04173 355276005249 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 355276005250 motif 1; other site 355276005251 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 355276005252 active site 355276005253 motif 2; other site 355276005254 motif 3; other site 355276005255 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 355276005256 anticodon binding site; other site 355276005257 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 355276005258 trimer interface [polypeptide binding]; other site 355276005259 active site 355276005260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005261 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005262 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005263 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355276005264 hydrophobic ligand binding site; other site 355276005265 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 355276005266 dimerization interface [polypeptide binding]; other site 355276005267 putative DNA binding site [nucleotide binding]; other site 355276005268 putative Zn2+ binding site [ion binding]; other site 355276005269 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 355276005270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005271 NAD(P) binding site [chemical binding]; other site 355276005272 active site 355276005273 adenylosuccinate lyase; Provisional; Region: PRK07492 355276005274 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 355276005275 tetramer interface [polypeptide binding]; other site 355276005276 active site 355276005277 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 355276005278 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 355276005279 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 355276005280 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 355276005281 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355276005282 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 355276005283 synthetase active site [active] 355276005284 NTP binding site [chemical binding]; other site 355276005285 metal binding site [ion binding]; metal-binding site 355276005286 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 355276005287 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 355276005288 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 355276005289 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 355276005290 dimerization interface [polypeptide binding]; other site 355276005291 active site 355276005292 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 355276005293 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 355276005294 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 355276005295 anti sigma factor interaction site; other site 355276005296 regulatory phosphorylation site [posttranslational modification]; other site 355276005297 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 355276005298 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 355276005299 ferric uptake regulator; Provisional; Region: fur; PRK09462 355276005300 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 355276005301 metal binding site 2 [ion binding]; metal-binding site 355276005302 putative DNA binding helix; other site 355276005303 metal binding site 1 [ion binding]; metal-binding site 355276005304 dimer interface [polypeptide binding]; other site 355276005305 structural Zn2+ binding site [ion binding]; other site 355276005306 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276005307 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 355276005308 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276005309 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 355276005310 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 355276005311 Spore germination protein; Region: Spore_permease; cl15802 355276005312 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 355276005313 active site 355276005314 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 355276005315 catalytic triad [active] 355276005316 multifunctional aminopeptidase A; Provisional; Region: PRK00913 355276005317 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 355276005318 interface (dimer of trimers) [polypeptide binding]; other site 355276005319 Substrate-binding/catalytic site; other site 355276005320 Zn-binding sites [ion binding]; other site 355276005321 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 355276005322 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 355276005323 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 355276005324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005325 Polysulphide reductase, NrfD; Region: NrfD; cl01295 355276005326 Cytochrome c; Region: Cytochrom_C; cl11414 355276005327 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 355276005328 Polysulphide reductase, NrfD; Region: NrfD; cl01295 355276005329 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 355276005330 The MopB_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding (MopB) proteins. This CD is of the PHLH region homologous to the catalytic molybdopterin-binding subunit of MopB homologs; Region: MopB_PHLH; cd02764 355276005331 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 355276005332 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 355276005333 4Fe-4S binding domain; Region: Fer4; cl02805 355276005334 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 355276005335 heme-binding residues [chemical binding]; other site 355276005336 Integrase core domain; Region: rve; cl01316 355276005337 Integrase core domain; Region: rve_3; cl15866 355276005338 Integrase core domain; Region: rve; cl01316 355276005339 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 355276005340 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 355276005341 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14465 355276005342 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 355276005343 FeS/SAM binding site; other site 355276005344 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 355276005345 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 355276005346 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 355276005347 active site 355276005348 ribulose/triose binding site [chemical binding]; other site 355276005349 phosphate binding site [ion binding]; other site 355276005350 substrate (anthranilate) binding pocket [chemical binding]; other site 355276005351 product (indole) binding pocket [chemical binding]; other site 355276005352 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 355276005353 anti sigma factor interaction site; other site 355276005354 regulatory phosphorylation site [posttranslational modification]; other site 355276005355 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 355276005356 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355276005357 GAF domain; Region: GAF_2; pfam13185 355276005358 GAF domain; Region: GAF; cl15785 355276005359 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355276005360 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355276005361 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 355276005362 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 355276005363 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 355276005364 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 355276005365 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 355276005366 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 355276005367 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 355276005368 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 355276005369 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 355276005370 putative catalytic residue [active] 355276005371 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276005372 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 355276005373 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355276005374 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276005375 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 355276005376 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 355276005377 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276005378 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 355276005379 IMP binding site; other site 355276005380 dimer interface [polypeptide binding]; other site 355276005381 interdomain contacts; other site 355276005382 partial ornithine binding site; other site 355276005383 Sulfatase; Region: Sulfatase; cl10460 355276005384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005385 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355276005386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276005387 active site 355276005388 phosphorylation site [posttranslational modification] 355276005389 intermolecular recognition site; other site 355276005390 dimerization interface [polypeptide binding]; other site 355276005391 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 355276005392 DNA binding residues [nucleotide binding] 355276005393 dimerization interface [polypeptide binding]; other site 355276005394 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276005395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355276005396 Histidine kinase; Region: HisKA_3; pfam07730 355276005397 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276005398 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355276005399 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 355276005400 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355276005401 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 355276005402 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 355276005403 Walker A motif; other site 355276005404 ATP binding site [chemical binding]; other site 355276005405 Walker B motif; other site 355276005406 arginine finger; other site 355276005407 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 355276005408 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355276005409 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 355276005410 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 355276005411 protein binding site [polypeptide binding]; other site 355276005412 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 355276005413 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 355276005414 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 355276005415 TMP-binding site; other site 355276005416 ATP-binding site [chemical binding]; other site 355276005417 TPR repeat; Region: TPR_11; pfam13414 355276005418 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 355276005419 binding surface 355276005420 TPR motif; other site 355276005421 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276005422 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 355276005423 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 355276005424 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355276005425 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276005426 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 355276005427 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355276005428 catalytic residue [active] 355276005429 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 355276005430 dimer interface [polypeptide binding]; other site 355276005431 Citrate synthase; Region: Citrate_synt; pfam00285 355276005432 active site 355276005433 citrylCoA binding site [chemical binding]; other site 355276005434 NADH binding [chemical binding]; other site 355276005435 cationic pore residues; other site 355276005436 oxalacetate/citrate binding site [chemical binding]; other site 355276005437 coenzyme A binding site [chemical binding]; other site 355276005438 catalytic triad [active] 355276005439 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 355276005440 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 355276005441 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276005442 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 355276005443 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276005444 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 355276005445 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 355276005446 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 355276005447 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 355276005448 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 355276005449 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 355276005450 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 355276005451 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 355276005452 active site 355276005453 dimer interface [polypeptide binding]; other site 355276005454 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 355276005455 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 355276005456 active site 355276005457 FMN binding site [chemical binding]; other site 355276005458 substrate binding site [chemical binding]; other site 355276005459 3Fe-4S cluster binding site [ion binding]; other site 355276005460 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 355276005461 domain interface; other site 355276005462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005465 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 355276005466 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276005467 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 355276005468 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 355276005469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005470 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 355276005471 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 355276005472 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 355276005473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276005474 homodimer interface [polypeptide binding]; other site 355276005475 catalytic residue [active] 355276005476 Helix-turn-helix domains; Region: HTH; cl00088 355276005477 transcription termination factor Rho; Provisional; Region: rho; PRK09376 355276005478 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 355276005479 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 355276005480 RNA binding site [nucleotide binding]; other site 355276005481 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 355276005482 multimer interface [polypeptide binding]; other site 355276005483 Walker A motif; other site 355276005484 ATP binding site [chemical binding]; other site 355276005485 Walker B motif; other site 355276005486 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 355276005487 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 355276005488 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 355276005489 trimerization site [polypeptide binding]; other site 355276005490 active site 355276005491 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 355276005492 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 355276005493 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 355276005494 FecR protein; Region: FecR; pfam04773 355276005495 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 355276005496 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 355276005497 dimerization interface [polypeptide binding]; other site 355276005498 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 355276005499 cyclase homology domain; Region: CHD; cd07302 355276005500 nucleotidyl binding site; other site 355276005501 metal binding site [ion binding]; metal-binding site 355276005502 dimer interface [polypeptide binding]; other site 355276005503 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355276005504 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355276005505 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355276005506 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355276005507 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 355276005508 Mechanosensitive ion channel; Region: MS_channel; pfam00924 355276005509 UbiA prenyltransferase family; Region: UbiA; cl00337 355276005510 Kua-ubiquitin conjugating enzyme hybrid localisation domain; Region: Kua-UEV1_localn; pfam10520 355276005511 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 355276005512 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276005513 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276005514 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 355276005515 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 355276005516 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 355276005517 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355276005518 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 355276005519 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 355276005520 putative active site [active] 355276005521 catalytic triad [active] 355276005522 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 355276005523 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 355276005524 active site 355276005525 ATP binding site [chemical binding]; other site 355276005526 substrate binding site [chemical binding]; other site 355276005527 Response regulator receiver domain; Region: Response_reg; pfam00072 355276005528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276005529 active site 355276005530 phosphorylation site [posttranslational modification] 355276005531 intermolecular recognition site; other site 355276005532 dimerization interface [polypeptide binding]; other site 355276005533 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276005534 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 355276005535 CcmB protein; Region: CcmB; cl01016 355276005536 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 355276005537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005538 Walker A/P-loop; other site 355276005539 ATP binding site [chemical binding]; other site 355276005540 Q-loop/lid; other site 355276005541 ABC transporter signature motif; other site 355276005542 Walker B; other site 355276005543 D-loop; other site 355276005544 H-loop/switch region; other site 355276005545 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276005546 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 355276005547 binding surface 355276005548 TPR motif; other site 355276005549 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 355276005550 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 355276005551 Walker A/P-loop; other site 355276005552 ATP binding site [chemical binding]; other site 355276005553 Q-loop/lid; other site 355276005554 ABC transporter signature motif; other site 355276005555 Walker B; other site 355276005556 D-loop; other site 355276005557 H-loop/switch region; other site 355276005558 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 355276005559 dimerization interface [polypeptide binding]; other site 355276005560 putative DNA binding site [nucleotide binding]; other site 355276005561 putative Zn2+ binding site [ion binding]; other site 355276005562 DoxX; Region: DoxX; cl00976 355276005563 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 355276005564 hydrophobic ligand binding site; other site 355276005565 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 355276005566 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 355276005567 putative hydrophobic ligand binding site [chemical binding]; other site 355276005568 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 355276005569 ATP binding site [chemical binding]; other site 355276005570 putative Mg++ binding site [ion binding]; other site 355276005571 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 355276005572 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 355276005573 nucleotide binding region [chemical binding]; other site 355276005574 ATP-binding site [chemical binding]; other site 355276005575 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 355276005576 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 355276005577 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 355276005578 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 355276005579 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 355276005580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005581 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 355276005582 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 355276005583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005584 Family description; Region: UvrD_C_2; cl15862 355276005585 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355276005586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005587 Walker A/P-loop; other site 355276005588 ATP binding site [chemical binding]; other site 355276005589 Q-loop/lid; other site 355276005590 ABC transporter signature motif; other site 355276005591 Walker B; other site 355276005592 D-loop; other site 355276005593 H-loop/switch region; other site 355276005594 ABC-2 type transporter; Region: ABC2_membrane; cl11417 355276005595 short chain dehydrogenase; Provisional; Region: PRK06181 355276005596 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 355276005597 putative NAD(P) binding site [chemical binding]; other site 355276005598 homotetramer interface [polypeptide binding]; other site 355276005599 active site 355276005600 homodimer interface [polypeptide binding]; other site 355276005601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005602 HDOD domain; Region: HDOD; pfam08668 355276005603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 355276005604 Zn2+ binding site [ion binding]; other site 355276005605 Mg2+ binding site [ion binding]; other site 355276005606 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 355276005607 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 355276005608 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 355276005609 Walker A/P-loop; other site 355276005610 ATP binding site [chemical binding]; other site 355276005611 Q-loop/lid; other site 355276005612 ABC transporter signature motif; other site 355276005613 Walker B; other site 355276005614 D-loop; other site 355276005615 H-loop/switch region; other site 355276005616 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 355276005617 catalytic core [active] 355276005618 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 355276005619 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 355276005620 active site 355276005621 catalytic triad [active] 355276005622 oxyanion hole [active] 355276005623 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 355276005624 anti sigma factor interaction site; other site 355276005625 regulatory phosphorylation site [posttranslational modification]; other site 355276005626 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 355276005627 Int/Topo IB signature motif; other site 355276005628 active site 355276005629 catalytic residues [active] 355276005630 DNA binding site [nucleotide binding] 355276005631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 355276005632 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 355276005633 ligand binding site [chemical binding]; other site 355276005634 flexible hinge region; other site 355276005635 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 355276005636 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 355276005637 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 355276005638 ligand binding site [chemical binding]; other site 355276005639 flexible hinge region; other site 355276005640 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 355276005641 endonuclease III; Region: ENDO3c; smart00478 355276005642 minor groove reading motif; other site 355276005643 helix-hairpin-helix signature motif; other site 355276005644 substrate binding pocket [chemical binding]; other site 355276005645 active site 355276005646 Beta-propeller repeat; Region: SBBP; pfam06739 355276005647 Beta-propeller repeat; Region: SBBP; pfam06739 355276005648 Beta-propeller repeat; Region: SBBP; pfam06739 355276005649 Beta-propeller repeat; Region: SBBP; pfam06739 355276005650 Beta-propeller repeat; Region: SBBP; pfam06739 355276005651 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 355276005652 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 355276005653 active site 355276005654 metal binding site [ion binding]; metal-binding site 355276005655 DNA binding site [nucleotide binding] 355276005656 AAA domain; Region: AAA_23; pfam13476 355276005657 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005658 hypothetical protein; Provisional; Region: PRK00106 355276005659 AAA domain; Region: AAA_21; pfam13304 355276005660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276005661 ABC transporter signature motif; other site 355276005662 Walker B; other site 355276005663 D-loop; other site 355276005664 H-loop/switch region; other site 355276005665 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 355276005666 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 355276005667 S-adenosylmethionine binding site [chemical binding]; other site 355276005668 Sporulation related domain; Region: SPOR; cl10051 355276005669 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 355276005670 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 355276005671 ATP-binding [chemical binding]; other site 355276005672 CoA-binding site [chemical binding]; other site 355276005673 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 355276005674 active site 355276005675 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 355276005676 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 355276005677 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 355276005678 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 355276005679 HSP70 interaction site [polypeptide binding]; other site 355276005680 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 355276005681 anti sigma factor interaction site; other site 355276005682 regulatory phosphorylation site [posttranslational modification]; other site 355276005683 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 355276005684 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 355276005685 active site 355276005686 Riboflavin kinase; Region: Flavokinase; cl03312 355276005687 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276005688 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276005689 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 355276005690 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 355276005691 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 355276005692 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 355276005693 amphipathic channel; other site 355276005694 Asn-Pro-Ala signature motifs; other site 355276005695 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 355276005696 dimer interface [polypeptide binding]; other site 355276005697 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276005698 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276005699 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 355276005700 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 355276005701 dimer interface [polypeptide binding]; other site 355276005702 ssDNA binding site [nucleotide binding]; other site 355276005703 tetramer (dimer of dimers) interface [polypeptide binding]; other site 355276005704 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 355276005705 YceG-like family; Region: YceG; pfam02618 355276005706 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 355276005707 dimerization interface [polypeptide binding]; other site 355276005708 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276005709 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 355276005710 active site 355276005711 Substrate binding site; other site 355276005712 Mg++ binding site; other site 355276005713 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355276005714 Ligand binding site; other site 355276005715 Putative Catalytic site; other site 355276005716 DXD motif; other site 355276005717 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 355276005718 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355276005719 NAD binding site [chemical binding]; other site 355276005720 homotetramer interface [polypeptide binding]; other site 355276005721 homodimer interface [polypeptide binding]; other site 355276005722 active site 355276005723 substrate binding site [chemical binding]; other site 355276005724 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355276005725 Ligand binding site; other site 355276005726 Putative Catalytic site; other site 355276005727 DXD motif; other site 355276005728 flagellin; Provisional; Region: PRK12805 355276005729 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 355276005730 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 355276005731 oligomeric interface; other site 355276005732 putative active site [active] 355276005733 homodimer interface [polypeptide binding]; other site 355276005734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005735 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005736 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005737 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276005738 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 355276005739 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 355276005740 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276005741 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355276005742 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 355276005743 inhibitor-cofactor binding pocket; inhibition site 355276005744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276005745 catalytic residue [active] 355276005746 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 355276005747 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 355276005748 active site 355276005749 purine riboside binding site [chemical binding]; other site 355276005750 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 355276005751 non-specific DNA binding site [nucleotide binding]; other site 355276005752 salt bridge; other site 355276005753 sequence-specific DNA binding site [nucleotide binding]; other site 355276005754 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355276005755 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 355276005756 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005757 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005758 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005759 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005760 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005761 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005762 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 355276005763 Response regulator receiver domain; Region: Response_reg; pfam00072 355276005764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276005765 active site 355276005766 phosphorylation site [posttranslational modification] 355276005767 intermolecular recognition site; other site 355276005768 dimerization interface [polypeptide binding]; other site 355276005769 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 355276005770 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276005771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 355276005772 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 355276005773 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276005774 ATP binding site [chemical binding]; other site 355276005775 G-X-G motif; other site 355276005776 Phosphotransferase enzyme family; Region: APH; pfam01636 355276005777 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 355276005778 substrate binding site [chemical binding]; other site 355276005779 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 355276005780 Substrate binding site; other site 355276005781 metal-binding site 355276005782 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 355276005783 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 355276005784 active site 355276005785 dimer interface [polypeptide binding]; other site 355276005786 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 355276005787 dimer interface [polypeptide binding]; other site 355276005788 active site 355276005789 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cd09593 355276005790 ligand binding site [chemical binding]; other site 355276005791 active site 355276005792 hypothetical protein; Provisional; Region: PRK04164 355276005793 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 355276005794 SET domain; Region: SET; cl02566 355276005795 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355276005796 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 355276005797 S-adenosylmethionine binding site [chemical binding]; other site 355276005798 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 355276005799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005800 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276005801 PAS domain; Region: PAS_9; pfam13426 355276005802 putative active site [active] 355276005803 heme pocket [chemical binding]; other site 355276005804 Helix-turn-helix domains; Region: HTH; cl00088 355276005805 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 355276005806 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 355276005807 metal-binding site [ion binding] 355276005808 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 355276005809 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276005810 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 355276005811 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 355276005812 putative homotetramer interface [polypeptide binding]; other site 355276005813 putative homodimer interface [polypeptide binding]; other site 355276005814 putative allosteric switch controlling residues; other site 355276005815 putative metal binding site [ion binding]; other site 355276005816 putative homodimer-homodimer interface [polypeptide binding]; other site 355276005817 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 355276005818 Sulfate transporter family; Region: Sulfate_transp; cl15842 355276005819 Sulfate transporter family; Region: Sulfate_transp; cl15842 355276005820 Protein of unknown function (DUF806); Region: DUF806; pfam05657 355276005821 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 355276005822 active site clefts [active] 355276005823 zinc binding site [ion binding]; other site 355276005824 dimer interface [polypeptide binding]; other site 355276005825 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355276005826 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355276005827 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 355276005828 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 355276005829 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276005830 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276005831 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276005832 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 355276005833 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 355276005834 dimer interface [polypeptide binding]; other site 355276005835 active site 355276005836 Leptospira porin protein OmpL1; Region: Porin_OmpL1; pfam11389 355276005837 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 355276005838 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 355276005839 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 355276005840 active site 355276005841 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 355276005842 CoA-transferase family III; Region: CoA_transf_3; pfam02515 355276005843 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 355276005844 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276005845 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355276005846 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 355276005847 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 355276005848 N-terminal plug; other site 355276005849 ligand-binding site [chemical binding]; other site 355276005850 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 355276005851 putative active site [active] 355276005852 CcmE; Region: CcmE; cl00994 355276005853 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 355276005854 Cytochrome C biogenesis protein; Region: CcmH; cl01179 355276005855 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 355276005856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276005857 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 355276005858 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 355276005859 dimer interface [polypeptide binding]; other site 355276005860 active site 355276005861 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 355276005862 active site 355276005863 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 355276005864 active site 355276005865 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276005866 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276005867 Helix-turn-helix domains; Region: HTH; cl00088 355276005868 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 355276005869 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 355276005870 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 355276005871 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 355276005872 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 355276005873 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 355276005874 active site 355276005875 putative DNA-binding cleft [nucleotide binding]; other site 355276005876 dimer interface [polypeptide binding]; other site 355276005877 Transcriptional regulator; Region: Transcrip_reg; cl00361 355276005878 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 355276005879 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 355276005880 Sodium:solute symporter family; Region: SSF; cl00456 355276005881 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355276005882 aspartate kinase; Reviewed; Region: PRK06635 355276005883 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 355276005884 putative nucleotide binding site [chemical binding]; other site 355276005885 putative catalytic residues [active] 355276005886 putative Mg ion binding site [ion binding]; other site 355276005887 putative aspartate binding site [chemical binding]; other site 355276005888 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 355276005889 putative allosteric regulatory site; other site 355276005890 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 355276005891 putative allosteric regulatory residue; other site 355276005892 Cache domain; Region: Cache_1; pfam02743 355276005893 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 355276005894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276005895 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276005896 dimer interface [polypeptide binding]; other site 355276005897 putative CheW interface [polypeptide binding]; other site 355276005898 Cache domain; Region: Cache_1; pfam02743 355276005899 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 355276005900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276005901 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276005902 dimer interface [polypeptide binding]; other site 355276005903 putative CheW interface [polypeptide binding]; other site 355276005904 SurA N-terminal domain; Region: SurA_N_3; cl07813 355276005905 putative peptidyl-prolyl cis-trans isomerase, LIC12922 family; Region: PCisTranLspir; TIGR04142 355276005906 PPIC-type PPIASE domain; Region: Rotamase; cl08278 355276005907 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 355276005908 Radical SAM superfamily; Region: Radical_SAM; pfam04055 355276005909 FeS/SAM binding site; other site 355276005910 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 355276005911 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 355276005912 ligand binding site; other site 355276005913 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 355276005914 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 355276005915 active site 355276005916 HIGH motif; other site 355276005917 nucleotide binding site [chemical binding]; other site 355276005918 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 355276005919 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 355276005920 active site 355276005921 KMSKS motif; other site 355276005922 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 355276005923 tRNA binding surface [nucleotide binding]; other site 355276005924 anticodon binding site; other site 355276005925 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 355276005926 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13789 355276005927 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 355276005928 ATP-grasp domain; Region: ATP-grasp_4; cl03087 355276005929 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 355276005930 peptide chain release factor 2; Validated; Region: prfB; PRK00578 355276005931 RF-1 domain; Region: RF-1; cl02875 355276005932 RF-1 domain; Region: RF-1; cl02875 355276005933 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 355276005934 putative catalytic site [active] 355276005935 metal binding site A [ion binding]; metal-binding site 355276005936 phosphate binding site [ion binding]; other site 355276005937 metal binding site C [ion binding]; metal-binding site 355276005938 metal binding site B [ion binding]; metal-binding site 355276005939 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 355276005940 substrate binding site [chemical binding]; other site 355276005941 multimerization interface [polypeptide binding]; other site 355276005942 ATP binding site [chemical binding]; other site 355276005943 Protein required for attachment to host cells; Region: Host_attach; cl02398 355276005944 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 355276005945 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 355276005946 N- and C-terminal domain interface [polypeptide binding]; other site 355276005947 active site 355276005948 MgATP binding site [chemical binding]; other site 355276005949 catalytic site [active] 355276005950 metal binding site [ion binding]; metal-binding site 355276005951 carbohydrate binding site [chemical binding]; other site 355276005952 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 355276005953 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 355276005954 heme-binding site [chemical binding]; other site 355276005955 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276005956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276005957 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 355276005958 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 355276005959 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355276005960 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 355276005961 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355276005962 proton-translocating NADH-quinone oxidoreductase, chain L; Region: NDH_I_L; TIGR01974 355276005963 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 355276005964 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 355276005965 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 355276005966 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 355276005967 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 355276005968 NADH dehydrogenase; Region: NADHdh; cl00469 355276005969 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 355276005970 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 355276005971 SLBB domain; Region: SLBB; pfam10531 355276005972 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 355276005973 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 355276005974 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 355276005975 putative dimer interface [polypeptide binding]; other site 355276005976 [2Fe-2S] cluster binding site [ion binding]; other site 355276005977 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 355276005978 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 355276005979 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 355276005980 NADH dehydrogenase subunit B; Provisional; Region: PRK14814 355276005981 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 355276005982 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 355276005983 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 355276005984 putative active site [active] 355276005985 putative catalytic site [active] 355276005986 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355276005987 Helix-turn-helix domains; Region: HTH; cl00088 355276005988 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 355276005989 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 355276005990 RNA/DNA binding site [nucleotide binding]; other site 355276005991 RRM dimerization site [polypeptide binding]; other site 355276005992 Type III pantothenate kinase; Region: Pan_kinase; cl09130 355276005993 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 355276005994 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 355276005995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276005996 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 355276005997 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 355276005998 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 355276005999 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 355276006000 NMT1-like family; Region: NMT1_2; cl15260 355276006001 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 355276006002 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 355276006003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006004 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 355276006005 nucleotide binding site/active site [active] 355276006006 HIT family signature motif; other site 355276006007 catalytic residue [active] 355276006008 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 355276006009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006010 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 355276006011 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355276006012 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355276006013 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 355276006014 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 355276006015 Mg++ binding site [ion binding]; other site 355276006016 putative catalytic motif [active] 355276006017 putative substrate binding site [chemical binding]; other site 355276006018 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 355276006019 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 355276006020 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 355276006021 active site 355276006022 homodimer interface [polypeptide binding]; other site 355276006023 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 355276006024 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 355276006025 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 355276006026 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 355276006027 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 355276006028 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 355276006029 catalytic residues [active] 355276006030 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 355276006031 binding surface 355276006032 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276006033 TPR motif; other site 355276006034 TPR repeat; Region: TPR_11; pfam13414 355276006035 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 355276006036 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276006037 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 355276006038 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 355276006039 conserved cys residue [active] 355276006040 HDOD domain; Region: HDOD; pfam08668 355276006041 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 355276006042 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 355276006043 NAD(P) binding site [chemical binding]; other site 355276006044 catalytic residues [active] 355276006045 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 355276006046 Ferritin-like domain; Region: Ferritin; pfam00210 355276006047 dimerization interface [polypeptide binding]; other site 355276006048 DPS ferroxidase diiron center [ion binding]; other site 355276006049 ion pore; other site 355276006050 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355276006051 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 355276006052 inhibitor-cofactor binding pocket; inhibition site 355276006053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276006054 catalytic residue [active] 355276006055 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 355276006056 Found in ATP-dependent protease La (LON); Region: LON; smart00464 355276006057 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 355276006058 Walker A motif; other site 355276006059 ATP binding site [chemical binding]; other site 355276006060 Walker B motif; other site 355276006061 arginine finger; other site 355276006062 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 355276006063 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355276006064 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 355276006065 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276006066 MAPEG family; Region: MAPEG; cl09190 355276006067 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 355276006068 PhoU domain; Region: PhoU; pfam01895 355276006069 PhoU domain; Region: PhoU; pfam01895 355276006070 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 355276006071 Predicted esterase [General function prediction only]; Region: COG0400 355276006072 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 355276006073 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 355276006074 NAD(P) binding site [chemical binding]; other site 355276006075 homotetramer interface [polypeptide binding]; other site 355276006076 homodimer interface [polypeptide binding]; other site 355276006077 active site 355276006078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006079 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006080 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006081 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 355276006082 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 355276006083 S-adenosylmethionine binding site [chemical binding]; other site 355276006084 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006086 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006087 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 355276006088 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 355276006089 trimer interface [polypeptide binding]; other site 355276006090 active site 355276006091 UDP-GlcNAc binding site [chemical binding]; other site 355276006092 lipid binding site [chemical binding]; lipid-binding site 355276006093 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 355276006094 EamA-like transporter family; Region: EamA; cl01037 355276006095 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 355276006096 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 355276006097 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 355276006098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006099 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 355276006100 chaperone protein DnaJ; Provisional; Region: PRK14286 355276006101 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 355276006102 HSP70 interaction site [polypeptide binding]; other site 355276006103 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 355276006104 substrate binding site [polypeptide binding]; other site 355276006105 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 355276006106 Zn binding sites [ion binding]; other site 355276006107 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 355276006108 dimer interface [polypeptide binding]; other site 355276006109 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 355276006110 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 355276006111 dimer interface [polypeptide binding]; other site 355276006112 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 355276006113 Helix-turn-helix domains; Region: HTH; cl00088 355276006114 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 355276006115 HrcA protein C terminal domain; Region: HrcA; pfam01628 355276006116 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 355276006117 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 355276006118 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276006119 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 355276006120 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 355276006121 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 355276006122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006123 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006124 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006125 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 355276006126 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 355276006127 active site 355276006128 catalytic site [active] 355276006129 metal binding site [ion binding]; metal-binding site 355276006130 dimer interface [polypeptide binding]; other site 355276006131 SET domain; Region: SET; cl02566 355276006132 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 355276006133 putative active site [active] 355276006134 Ap4A binding site [chemical binding]; other site 355276006135 nudix motif; other site 355276006136 putative metal binding site [ion binding]; other site 355276006137 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 355276006138 Acylphosphatase; Region: Acylphosphatase; cl00551 355276006139 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 355276006140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006141 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 355276006142 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 355276006143 Cation transport protein; Region: TrkH; cl10514 355276006144 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 355276006145 active site 355276006146 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 355276006147 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 355276006148 MatE; Region: MatE; cl10513 355276006149 MatE; Region: MatE; cl10513 355276006150 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 355276006151 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 355276006152 NADP-binding site; other site 355276006153 homotetramer interface [polypeptide binding]; other site 355276006154 substrate binding site [chemical binding]; other site 355276006155 homodimer interface [polypeptide binding]; other site 355276006156 active site 355276006157 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 355276006158 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 355276006159 active site 355276006160 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 355276006161 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 355276006162 NAD binding site [chemical binding]; other site 355276006163 homodimer interface [polypeptide binding]; other site 355276006164 active site 355276006165 substrate binding site [chemical binding]; other site 355276006166 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 355276006167 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 355276006168 ThiC-associated domain; Region: ThiC-associated; pfam13667 355276006169 ThiC family; Region: ThiC; cl08031 355276006170 PemK-like protein; Region: PemK; cl00995 355276006171 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 355276006172 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 355276006173 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 355276006174 generic binding surface II; other site 355276006175 ssDNA binding site; other site 355276006176 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 355276006177 ATP binding site [chemical binding]; other site 355276006178 putative Mg++ binding site [ion binding]; other site 355276006179 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 355276006180 nucleotide binding region [chemical binding]; other site 355276006181 ATP-binding site [chemical binding]; other site 355276006182 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 355276006183 active site 355276006184 metal binding site [ion binding]; metal-binding site 355276006185 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 355276006186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006187 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 355276006188 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 355276006189 Domain of unknown function DUF21; Region: DUF21; pfam01595 355276006190 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 355276006191 Transporter associated domain; Region: CorC_HlyC; cl08393 355276006192 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 355276006193 Flavoprotein; Region: Flavoprotein; cl08021 355276006194 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 355276006195 recombination protein F; Reviewed; Region: recF; PRK00064 355276006196 AAA domain; Region: AAA_21; pfam13304 355276006197 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 355276006198 ABC transporter signature motif; other site 355276006199 Walker B; other site 355276006200 D-loop; other site 355276006201 H-loop/switch region; other site 355276006202 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 355276006203 dimer interface [polypeptide binding]; other site 355276006204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006205 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006206 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006207 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 355276006208 FAD binding domain; Region: FAD_binding_4; pfam01565 355276006209 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 355276006210 GAF domain; Region: GAF_2; pfam13185 355276006211 GAF domain; Region: GAF; cl15785 355276006212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355276006213 metal binding site [ion binding]; metal-binding site 355276006214 active site 355276006215 I-site; other site 355276006216 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 355276006217 UbiA prenyltransferase family; Region: UbiA; cl00337 355276006218 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 355276006219 Cation transport protein; Region: TrkH; cl10514 355276006220 Cation transport protein; Region: TrkH; cl10514 355276006221 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 355276006222 elongation factor G; Reviewed; Region: PRK12740 355276006223 G1 box; other site 355276006224 putative GEF interaction site [polypeptide binding]; other site 355276006225 GTP/Mg2+ binding site [chemical binding]; other site 355276006226 Switch I region; other site 355276006227 G2 box; other site 355276006228 G3 box; other site 355276006229 Switch II region; other site 355276006230 G4 box; other site 355276006231 G5 box; other site 355276006232 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 355276006233 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 355276006234 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 355276006235 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 355276006236 putative peptidoglycan binding site; other site 355276006237 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276006238 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 355276006239 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 355276006240 active site 355276006241 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 355276006242 ligand binding site [chemical binding]; other site 355276006243 flexible hinge region; other site 355276006244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 355276006245 Tetratricopeptide repeat; Region: TPR_6; pfam13174 355276006246 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 355276006247 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 355276006248 ligand binding site [chemical binding]; other site 355276006249 flexible hinge region; other site 355276006250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006251 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006252 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006253 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 355276006254 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 355276006255 S-adenosylmethionine binding site [chemical binding]; other site 355276006256 Nitrogen regulatory protein P-II; Region: P-II; cl00412 355276006257 Nitrogen regulatory protein P-II; Region: P-II; smart00938 355276006258 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 355276006259 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 355276006260 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 355276006261 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 355276006262 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 355276006263 glutaminase active site [active] 355276006264 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 355276006265 dimer interface [polypeptide binding]; other site 355276006266 active site 355276006267 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 355276006268 dimer interface [polypeptide binding]; other site 355276006269 active site 355276006270 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 355276006271 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 355276006272 active site 355276006273 substrate binding site [chemical binding]; other site 355276006274 metal binding site [ion binding]; metal-binding site 355276006275 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 355276006276 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 355276006277 Ligand binding site; other site 355276006278 Putative Catalytic site; other site 355276006279 DXD motif; other site 355276006280 short chain dehydrogenase; Validated; Region: PRK05855 355276006281 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 355276006282 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 355276006283 S-adenosylmethionine binding site [chemical binding]; other site 355276006284 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 355276006285 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 355276006286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276006287 active site 355276006288 phosphorylation site [posttranslational modification] 355276006289 intermolecular recognition site; other site 355276006290 dimerization interface [polypeptide binding]; other site 355276006291 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 355276006292 DNA binding residues [nucleotide binding] 355276006293 dimerization interface [polypeptide binding]; other site 355276006294 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 355276006295 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 355276006296 NeuB family; Region: NeuB; cl00496 355276006297 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 355276006298 active site 355276006299 oligomerization interface [polypeptide binding]; other site 355276006300 metal binding site [ion binding]; metal-binding site 355276006301 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 355276006302 catalytic center binding site [active] 355276006303 ATP binding site [chemical binding]; other site 355276006304 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 355276006305 Walker A motif; other site 355276006306 ATP binding site [chemical binding]; other site 355276006307 Walker B motif; other site 355276006308 arginine finger; other site 355276006309 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 355276006310 active site 355276006311 catalytic residues [active] 355276006312 metal binding site [ion binding]; metal-binding site 355276006313 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 355276006314 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 355276006315 DUF35 OB-fold domain; Region: DUF35; pfam01796 355276006316 Cytochrome c; Region: Cytochrom_C; cl11414 355276006317 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 355276006318 anti sigma factor interaction site; other site 355276006319 regulatory phosphorylation site [posttranslational modification]; other site 355276006320 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 355276006321 Ligand binding site; other site 355276006322 oligomer interface; other site 355276006323 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 355276006324 flagellar motor protein MotB; Validated; Region: motB; PRK06667 355276006325 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 355276006326 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276006327 ligand binding site [chemical binding]; other site 355276006328 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355276006329 flagellar motor protein MotP; Reviewed; Region: PRK06926 355276006330 Flagellar protein (FlbD); Region: FlbD; cl00683 355276006331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276006332 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 355276006333 putative ADP-binding pocket [chemical binding]; other site 355276006334 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 355276006335 putative active site [active] 355276006336 metal binding site [ion binding]; metal-binding site 355276006337 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 355276006338 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 355276006339 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276006340 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 355276006341 binding surface 355276006342 TPR motif; other site 355276006343 Predicted membrane protein [Function unknown]; Region: COG4270 355276006344 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 355276006345 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276006346 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 355276006347 Protein of unknown function (DUF433); Region: DUF433; cl01030 355276006348 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 355276006349 homotrimer interaction site [polypeptide binding]; other site 355276006350 zinc binding site [ion binding]; other site 355276006351 CDP-binding sites; other site 355276006352 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276006353 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 355276006354 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 355276006355 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 355276006356 TPR motif; other site 355276006357 TPR repeat; Region: TPR_11; pfam13414 355276006358 binding surface 355276006359 TPR repeat; Region: TPR_11; pfam13414 355276006360 Quinolinate synthetase A protein; Region: NadA; cl00420 355276006361 cell division protein FtsZ; Validated; Region: PRK09330 355276006362 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 355276006363 nucleotide binding site [chemical binding]; other site 355276006364 SulA interaction site; other site 355276006365 cell division protein FtsA; Region: ftsA; TIGR01174 355276006366 Cell division protein FtsA; Region: FtsA; cl11496 355276006367 Cell division protein FtsA; Region: FtsA; cl11496 355276006368 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 355276006369 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 355276006370 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 355276006371 mce related protein; Region: MCE; pfam02470 355276006372 EamA-like transporter family; Region: EamA; cl01037 355276006373 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 355276006374 EamA-like transporter family; Region: EamA; cl01037 355276006375 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 355276006376 active site 355276006377 Zn binding site [ion binding]; other site 355276006378 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 355276006379 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 355276006380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006381 Uncharacterized conserved protein [Function unknown]; Region: COG3349 355276006382 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 355276006383 substrate binding site [chemical binding]; other site 355276006384 activation loop (A-loop); other site 355276006385 Predicted ATPase [General function prediction only]; Region: COG3899 355276006386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276006387 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 355276006388 GAF domain; Region: GAF; cl15785 355276006389 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276006390 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276006391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006392 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006393 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006394 HsdM N-terminal domain; Region: HsdM_N; pfam12161 355276006395 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 355276006396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006397 AAA domain; Region: AAA_13; pfam13166 355276006398 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 355276006399 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 355276006400 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 355276006401 ATP binding site [chemical binding]; other site 355276006402 putative Mg++ binding site [ion binding]; other site 355276006403 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 355276006404 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 355276006405 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 355276006406 FMN binding site [chemical binding]; other site 355276006407 active site 355276006408 catalytic residues [active] 355276006409 substrate binding site [chemical binding]; other site 355276006410 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 355276006411 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276006412 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 355276006413 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 355276006414 ATP binding site [chemical binding]; other site 355276006415 putative Mg++ binding site [ion binding]; other site 355276006416 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 355276006417 nucleotide binding region [chemical binding]; other site 355276006418 ATP-binding site [chemical binding]; other site 355276006419 RQC domain; Region: RQC; cl09632 355276006420 HRDC domain; Region: HRDC; cl02578 355276006421 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 355276006422 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276006423 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 355276006424 DNA binding residues [nucleotide binding] 355276006425 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 355276006426 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 355276006427 putative catalytic site [active] 355276006428 metal binding site A [ion binding]; metal-binding site 355276006429 phosphate binding site [ion binding]; other site 355276006430 metal binding site C [ion binding]; metal-binding site 355276006431 metal binding site B [ion binding]; metal-binding site 355276006432 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 355276006433 TPR motif; other site 355276006434 binding surface 355276006435 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276006436 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 355276006437 binding surface 355276006438 TPR motif; other site 355276006439 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 355276006440 enoyl-CoA hydratase; Provisional; Region: PRK06142 355276006441 substrate binding site [chemical binding]; other site 355276006442 oxyanion hole (OAH) forming residues; other site 355276006443 trimer interface [polypeptide binding]; other site 355276006444 Response regulator receiver domain; Region: Response_reg; pfam00072 355276006445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276006446 active site 355276006447 phosphorylation site [posttranslational modification] 355276006448 intermolecular recognition site; other site 355276006449 dimerization interface [polypeptide binding]; other site 355276006450 putative diguanylate cyclase; Provisional; Region: PRK09776 355276006451 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276006452 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 355276006453 Histidine kinase; Region: HisKA_2; cl06527 355276006454 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276006455 ATP binding site [chemical binding]; other site 355276006456 Mg2+ binding site [ion binding]; other site 355276006457 G-X-G motif; other site 355276006458 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 355276006459 Helix-turn-helix domains; Region: HTH; cl00088 355276006460 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 355276006461 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 355276006462 putative peptidoglycan binding site; other site 355276006463 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 355276006464 putative peptidoglycan binding site; other site 355276006465 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276006466 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355276006467 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 355276006468 Transglycosylase; Region: Transgly; cl07896 355276006469 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 355276006470 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 355276006471 diaminopimelate decarboxylase; Provisional; Region: PRK11165 355276006472 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 355276006473 active site 355276006474 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355276006475 substrate binding site [chemical binding]; other site 355276006476 catalytic residues [active] 355276006477 dimer interface [polypeptide binding]; other site 355276006478 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 355276006479 substrate binding site; other site 355276006480 dimer interface; other site 355276006481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276006482 Helix-turn-helix domains; Region: HTH; cl00088 355276006483 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 355276006484 CoenzymeA binding site [chemical binding]; other site 355276006485 subunit interaction site [polypeptide binding]; other site 355276006486 PHB binding site; other site 355276006487 Cation efflux family; Region: Cation_efflux; cl00316 355276006488 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 355276006489 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 355276006490 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 355276006491 GTPase RsgA; Reviewed; Region: PRK01889 355276006492 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 355276006493 RNA binding site [nucleotide binding]; other site 355276006494 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 355276006495 GTPase/Zn-binding domain interface [polypeptide binding]; other site 355276006496 GTP/Mg2+ binding site [chemical binding]; other site 355276006497 G4 box; other site 355276006498 G5 box; other site 355276006499 G1 box; other site 355276006500 Switch I region; other site 355276006501 G2 box; other site 355276006502 G3 box; other site 355276006503 Switch II region; other site 355276006504 Fatty acid desaturase; Region: FA_desaturase; pfam00487 355276006505 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 355276006506 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 355276006507 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 355276006508 FeS/SAM binding site; other site 355276006509 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 355276006510 dimerization interface [polypeptide binding]; other site 355276006511 putative DNA binding site [nucleotide binding]; other site 355276006512 putative Zn2+ binding site [ion binding]; other site 355276006513 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 355276006514 putative hydrophobic ligand binding site [chemical binding]; other site 355276006515 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 355276006516 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355276006517 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276006518 Helix-turn-helix domains; Region: HTH; cl00088 355276006519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006520 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 355276006521 NAD(P) binding site [chemical binding]; other site 355276006522 active site 355276006523 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 355276006524 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 355276006525 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276006526 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 355276006527 Protein export membrane protein; Region: SecD_SecF; cl14618 355276006528 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 355276006529 dimer interface [polypeptide binding]; other site 355276006530 phosphorylation site [posttranslational modification] 355276006531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276006532 ATP binding site [chemical binding]; other site 355276006533 Mg2+ binding site [ion binding]; other site 355276006534 G-X-G motif; other site 355276006535 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 355276006536 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 355276006537 substrate binding site [chemical binding]; other site 355276006538 oxyanion hole (OAH) forming residues; other site 355276006539 trimer interface [polypeptide binding]; other site 355276006540 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 355276006541 Sulfatase; Region: Sulfatase; cl10460 355276006542 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 355276006543 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 355276006544 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 355276006545 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 355276006546 active site 355276006547 catalytic site [active] 355276006548 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 355276006549 active site 355276006550 catalytic site [active] 355276006551 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 355276006552 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 355276006553 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276006554 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276006555 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276006556 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 355276006557 TPR motif; other site 355276006558 binding surface 355276006559 TPR repeat; Region: TPR_11; pfam13414 355276006560 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 355276006561 binding surface 355276006562 TPR motif; other site 355276006563 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 355276006564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006565 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 355276006566 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276006567 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276006568 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 355276006569 binding surface 355276006570 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276006571 TPR motif; other site 355276006572 Transglycosylase; Region: Transgly; cl07896 355276006573 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 355276006574 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 355276006575 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 355276006576 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 355276006577 trimer interface [polypeptide binding]; other site 355276006578 putative metal binding site [ion binding]; other site 355276006579 phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial; Region: pheT_bact; TIGR00472 355276006580 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 355276006581 putative tRNA-binding site [nucleotide binding]; other site 355276006582 B3/4 domain; Region: B3_4; cl11458 355276006583 tRNA synthetase B5 domain; Region: B5; cl08394 355276006584 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 355276006585 dimer interface [polypeptide binding]; other site 355276006586 motif 1; other site 355276006587 motif 3; other site 355276006588 motif 2; other site 355276006589 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 355276006590 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 355276006591 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 355276006592 ATP binding site [chemical binding]; other site 355276006593 putative Mg++ binding site [ion binding]; other site 355276006594 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 355276006595 nucleotide binding region [chemical binding]; other site 355276006596 ATP-dependent helicase HepA; Validated; Region: PRK04914 355276006597 ATP-binding site [chemical binding]; other site 355276006598 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 355276006599 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 355276006600 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 355276006601 putative acyl-acceptor binding pocket; other site 355276006602 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 355276006603 dimer interface [polypeptide binding]; other site 355276006604 substrate binding site [chemical binding]; other site 355276006605 metal binding sites [ion binding]; metal-binding site 355276006606 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 355276006607 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 355276006608 putative substrate translocation pore; other site 355276006609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 355276006610 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 355276006611 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 355276006612 Uncharacterized conserved protein [Function unknown]; Region: COG1262 355276006613 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 355276006614 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 355276006615 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 355276006616 ATP binding site [chemical binding]; other site 355276006617 Mg++ binding site [ion binding]; other site 355276006618 motif III; other site 355276006619 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 355276006620 nucleotide binding region [chemical binding]; other site 355276006621 ATP-binding site [chemical binding]; other site 355276006622 Membrane transport protein; Region: Mem_trans; cl09117 355276006623 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 355276006624 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355276006625 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276006626 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 355276006627 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276006628 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 355276006629 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276006630 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 355276006631 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 355276006632 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 355276006633 Response regulator receiver domain; Region: Response_reg; pfam00072 355276006634 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276006635 active site 355276006636 phosphorylation site [posttranslational modification] 355276006637 intermolecular recognition site; other site 355276006638 dimerization interface [polypeptide binding]; other site 355276006639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276006640 active site 355276006641 phosphorylation site [posttranslational modification] 355276006642 intermolecular recognition site; other site 355276006643 dimerization interface [polypeptide binding]; other site 355276006644 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 355276006645 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 355276006646 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 355276006647 putative active site [active] 355276006648 catalytic triad [active] 355276006649 putative dimer interface [polypeptide binding]; other site 355276006650 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 355276006651 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 355276006652 hinge; other site 355276006653 active site 355276006654 ferredoxin-type protein; Provisional; Region: PRK10194 355276006655 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 355276006656 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 355276006657 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 355276006658 Late embryogenesis abundant protein; Region: LEA_2; cl12118 355276006659 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 355276006660 dimer interface [polypeptide binding]; other site 355276006661 [2Fe-2S] cluster binding site [ion binding]; other site 355276006662 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 355276006663 amidophosphoribosyltransferase; Provisional; Region: PRK09123 355276006664 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 355276006665 active site 355276006666 tetramer interface [polypeptide binding]; other site 355276006667 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355276006668 active site 355276006669 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 355276006670 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 355276006671 putative active site [active] 355276006672 catalytic site [active] 355276006673 putative substrate binding site [chemical binding]; other site 355276006674 HRDC domain; Region: HRDC; cl02578 355276006675 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 355276006676 putative active site [active] 355276006677 putative CoA binding site [chemical binding]; other site 355276006678 nudix motif; other site 355276006679 metal binding site [ion binding]; metal-binding site 355276006680 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 355276006681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276006682 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 355276006683 DNA binding residues [nucleotide binding] 355276006684 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 355276006685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276006686 active site 355276006687 phosphorylation site [posttranslational modification] 355276006688 intermolecular recognition site; other site 355276006689 dimerization interface [polypeptide binding]; other site 355276006690 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 355276006691 DNA binding site [nucleotide binding] 355276006692 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 355276006693 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 355276006694 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 355276006695 dimer interface [polypeptide binding]; other site 355276006696 phosphorylation site [posttranslational modification] 355276006697 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276006698 ATP binding site [chemical binding]; other site 355276006699 Mg2+ binding site [ion binding]; other site 355276006700 G-X-G motif; other site 355276006701 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 355276006702 heterotetramer interface [polypeptide binding]; other site 355276006703 active site pocket [active] 355276006704 cleavage site 355276006705 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276006706 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276006707 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 355276006708 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 355276006709 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 355276006710 nucleotide binding pocket [chemical binding]; other site 355276006711 K-X-D-G motif; other site 355276006712 catalytic site [active] 355276006713 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 355276006714 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 355276006715 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 355276006716 Dimer interface [polypeptide binding]; other site 355276006717 BRCT sequence motif; other site 355276006718 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276006719 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276006720 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276006721 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 355276006722 DNA binding residues [nucleotide binding] 355276006723 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 355276006724 dimer interface [polypeptide binding]; other site 355276006725 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 355276006726 putative active site [active] 355276006727 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 355276006728 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 355276006729 NADP-binding site; other site 355276006730 homotetramer interface [polypeptide binding]; other site 355276006731 substrate binding site [chemical binding]; other site 355276006732 homodimer interface [polypeptide binding]; other site 355276006733 active site 355276006734 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 355276006735 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 355276006736 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276006737 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 355276006738 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 355276006739 active site 355276006740 dimerization interface [polypeptide binding]; other site 355276006741 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 355276006742 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 355276006743 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 355276006744 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 355276006745 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355276006746 classical (c) SDRs; Region: SDR_c; cd05233 355276006747 NAD(P) binding site [chemical binding]; other site 355276006748 active site 355276006749 Predicted amidohydrolase [General function prediction only]; Region: COG0388 355276006750 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 355276006751 putative active site [active] 355276006752 catalytic triad [active] 355276006753 putative dimer interface [polypeptide binding]; other site 355276006754 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 355276006755 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 355276006756 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 355276006757 active site 355276006758 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276006759 ligand binding site [chemical binding]; other site 355276006760 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 355276006761 fumarate hydratase; Reviewed; Region: fumC; PRK00485 355276006762 Class II fumarases; Region: Fumarase_classII; cd01362 355276006763 active site 355276006764 tetramer interface [polypeptide binding]; other site 355276006765 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276006766 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 355276006767 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 355276006768 trmE is a tRNA modification GTPase; Region: trmE; cd04164 355276006769 G1 box; other site 355276006770 GTP/Mg2+ binding site [chemical binding]; other site 355276006771 Switch I region; other site 355276006772 G2 box; other site 355276006773 Switch II region; other site 355276006774 G3 box; other site 355276006775 G4 box; other site 355276006776 G5 box; other site 355276006777 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 355276006778 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 355276006779 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 355276006780 G-X-X-G motif; other site 355276006781 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 355276006782 RxxxH motif; other site 355276006783 membrane protein insertase; Provisional; Region: PRK01318 355276006784 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 355276006785 Haemolytic domain; Region: Haemolytic; cl00506 355276006786 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 355276006787 cyclase homology domain; Region: CHD; cd07302 355276006788 nucleotidyl binding site; other site 355276006789 metal binding site [ion binding]; metal-binding site 355276006790 dimer interface [polypeptide binding]; other site 355276006791 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 355276006792 4Fe-4S binding domain; Region: Fer4; cl02805 355276006793 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 355276006794 catalytic loop [active] 355276006795 iron binding site [ion binding]; other site 355276006796 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 355276006797 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 355276006798 Molybdopterin oxidoreductase; Region: Molybdopterin; pfam00384 355276006799 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 355276006800 Tetramer interface [polypeptide binding]; other site 355276006801 active site 355276006802 FMN-binding site [chemical binding]; other site 355276006803 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 355276006804 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 355276006805 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 355276006806 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 355276006807 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 355276006808 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 355276006809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276006810 Walker A/P-loop; other site 355276006811 ATP binding site [chemical binding]; other site 355276006812 Q-loop/lid; other site 355276006813 ABC transporter signature motif; other site 355276006814 Walker B; other site 355276006815 D-loop; other site 355276006816 H-loop/switch region; other site 355276006817 SET domain; Region: SET; cl02566 355276006818 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 355276006819 GAF domain; Region: GAF_2; pfam13185 355276006820 GAF domain; Region: GAF; cl15785 355276006821 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 355276006822 GAF domain; Region: GAF; cl15785 355276006823 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 355276006824 Walker A motif; other site 355276006825 ATP binding site [chemical binding]; other site 355276006826 Walker B motif; other site 355276006827 arginine finger; other site 355276006828 Helix-turn-helix domains; Region: HTH; cl00088 355276006829 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 355276006830 Ligand Binding Site [chemical binding]; other site 355276006831 Predicted GTPase [General function prediction only]; Region: COG0218 355276006832 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 355276006833 G1 box; other site 355276006834 GTP/Mg2+ binding site [chemical binding]; other site 355276006835 Switch I region; other site 355276006836 G2 box; other site 355276006837 G3 box; other site 355276006838 Switch II region; other site 355276006839 G4 box; other site 355276006840 G5 box; other site 355276006841 PilZ domain; Region: PilZ; cl01260 355276006842 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 355276006843 dimer interface [polypeptide binding]; other site 355276006844 substrate binding site [chemical binding]; other site 355276006845 ATP binding site [chemical binding]; other site 355276006846 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 355276006847 DNA binding site [nucleotide binding] 355276006848 active site 355276006849 GAF domain; Region: GAF; cl15785 355276006850 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 355276006851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 355276006852 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276006853 ATP binding site [chemical binding]; other site 355276006854 Mg2+ binding site [ion binding]; other site 355276006855 G-X-G motif; other site 355276006856 GTPase RsgA; Reviewed; Region: PRK00098 355276006857 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 355276006858 RNA binding site [nucleotide binding]; other site 355276006859 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 355276006860 GTPase/Zn-binding domain interface [polypeptide binding]; other site 355276006861 GTP/Mg2+ binding site [chemical binding]; other site 355276006862 G4 box; other site 355276006863 G5 box; other site 355276006864 G1 box; other site 355276006865 Switch I region; other site 355276006866 G2 box; other site 355276006867 G3 box; other site 355276006868 Switch II region; other site 355276006869 FecR protein; Region: FecR; pfam04773 355276006870 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 355276006871 TPR repeat; Region: TPR_11; pfam13414 355276006872 binding surface 355276006873 TPR motif; other site 355276006874 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 355276006875 TPR repeat; Region: TPR_11; pfam13414 355276006876 TPR repeat; Region: TPR_11; pfam13414 355276006877 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 355276006878 TPR motif; other site 355276006879 binding surface 355276006880 TPR repeat; Region: TPR_11; pfam13414 355276006881 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 355276006882 binding surface 355276006883 TPR motif; other site 355276006884 TPR repeat; Region: TPR_11; pfam13414 355276006885 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 355276006886 binding surface 355276006887 TPR motif; other site 355276006888 tetratricopeptide repeat protein; Provisional; Region: PRK11788 355276006889 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 355276006890 TPR motif; other site 355276006891 TPR repeat; Region: TPR_11; pfam13414 355276006892 binding surface 355276006893 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 355276006894 binding surface 355276006895 TPR motif; other site 355276006896 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276006897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276006898 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276006899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006900 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006901 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006902 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 355276006903 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 355276006904 Maf-like protein; Region: Maf; pfam02545 355276006905 active site 355276006906 dimer interface [polypeptide binding]; other site 355276006907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276006908 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276006909 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276006910 seryl-tRNA synthetase; Provisional; Region: PRK05431 355276006911 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 355276006912 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 355276006913 dimer interface [polypeptide binding]; other site 355276006914 active site 355276006915 motif 1; other site 355276006916 motif 2; other site 355276006917 motif 3; other site 355276006918 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 355276006919 active site 355276006920 Peptidase family M23; Region: Peptidase_M23; pfam01551 355276006921 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 355276006922 Protein of unknown function (DUF327); Region: DUF327; cl00753 355276006923 ParB-like partition proteins; Region: parB_part; TIGR00180 355276006924 ParB-like nuclease domain; Region: ParBc; cl02129 355276006925 KorB domain; Region: KorB; pfam08535 355276006926 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355276006927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276006928 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 355276006929 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 355276006930 active site 355276006931 catalytic residue [active] 355276006932 dimer interface [polypeptide binding]; other site 355276006933 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 355276006934 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 355276006935 putative active site [active] 355276006936 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 355276006937 transcriptional activator RfaH; Region: RfaH; TIGR01955 355276006938 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 355276006939 PAS domain; Region: PAS_9; pfam13426 355276006940 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 355276006941 putative active site [active] 355276006942 heme pocket [chemical binding]; other site 355276006943 UbiA prenyltransferase family; Region: UbiA; cl00337 355276006944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 355276006945 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 355276006946 dimer interface [polypeptide binding]; other site 355276006947 putative CheW interface [polypeptide binding]; other site 355276006948 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 355276006949 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 355276006950 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 355276006951 NAD binding site [chemical binding]; other site 355276006952 putative substrate binding site 2 [chemical binding]; other site 355276006953 putative substrate binding site 1 [chemical binding]; other site 355276006954 active site 355276006955 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 355276006956 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 355276006957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276006958 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 355276006959 active site 355276006960 histidyl-tRNA synthetase; Region: hisS; TIGR00442 355276006961 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 355276006962 dimer interface [polypeptide binding]; other site 355276006963 motif 1; other site 355276006964 active site 355276006965 motif 2; other site 355276006966 motif 3; other site 355276006967 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 355276006968 anticodon binding site; other site 355276006969 Protein of unknown function (DUF1577); Region: DUF1577; pfam07614 355276006970 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355276006971 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 355276006972 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 355276006973 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 355276006974 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276006975 ligand binding site [chemical binding]; other site 355276006976 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 355276006977 dihydropteroate synthase; Region: DHPS; TIGR01496 355276006978 substrate binding pocket [chemical binding]; other site 355276006979 dimer interface [polypeptide binding]; other site 355276006980 inhibitor binding site; inhibition site 355276006981 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 355276006982 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276006983 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 355276006984 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 355276006985 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 355276006986 binding surface 355276006987 TPR motif; other site 355276006988 TPR repeat; Region: TPR_11; pfam13414 355276006989 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 355276006990 binding surface 355276006991 Tetratricopeptide repeat; Region: TPR_12; pfam13424 355276006992 TPR motif; other site 355276006993 TPR repeat; Region: TPR_11; pfam13414 355276006994 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 355276006995 TPR motif; other site 355276006996 binding surface 355276006997 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 355276006998 Sporulation related domain; Region: SPOR; cl10051 355276006999 serine O-acetyltransferase; Region: cysE; TIGR01172 355276007000 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 355276007001 trimer interface [polypeptide binding]; other site 355276007002 active site 355276007003 substrate binding site [chemical binding]; other site 355276007004 CoA binding site [chemical binding]; other site 355276007005 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 355276007006 active site 355276007007 putative substrate binding region [chemical binding]; other site 355276007008 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 355276007009 structural tetrad; other site 355276007010 putative efflux protein, MATE family; Region: matE; TIGR00797 355276007011 MatE; Region: MatE; cl10513 355276007012 MatE; Region: MatE; cl10513 355276007013 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 355276007014 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 355276007015 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 355276007016 dimerization interface [polypeptide binding]; other site 355276007017 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276007018 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276007019 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 355276007020 binding surface 355276007021 Tetratricopeptide repeat; Region: TPR_16; pfam13432 355276007022 TPR motif; other site 355276007023 TPR repeat; Region: TPR_11; pfam13414 355276007024 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 355276007025 Zn binding site [ion binding]; other site 355276007026 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 355276007027 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 355276007028 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 355276007029 dimerization interface [polypeptide binding]; other site 355276007030 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276007031 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276007032 TPR repeat; Region: TPR_11; pfam13414 355276007033 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 355276007034 binding surface 355276007035 TPR motif; other site 355276007036 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 355276007037 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 355276007038 trimer interface [polypeptide binding]; other site 355276007039 active site 355276007040 enoyl-CoA hydratase; Provisional; Region: PRK07657 355276007041 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 355276007042 substrate binding site [chemical binding]; other site 355276007043 oxyanion hole (OAH) forming residues; other site 355276007044 trimer interface [polypeptide binding]; other site 355276007045 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 355276007046 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 355276007047 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 355276007048 active site 355276007049 metal binding site [ion binding]; metal-binding site 355276007050 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 355276007051 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 355276007052 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355276007053 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 355276007054 S-adenosylmethionine binding site [chemical binding]; other site 355276007055 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 355276007056 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 355276007057 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 355276007058 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 355276007059 putative acyl-acceptor binding pocket; other site 355276007060 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 355276007061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 355276007062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276007063 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276007064 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276007065 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 355276007066 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 355276007067 putative metal binding site [ion binding]; other site 355276007068 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 355276007069 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 355276007070 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276007071 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 355276007072 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 355276007073 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355276007074 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 355276007075 P-loop; other site 355276007076 Magnesium ion binding site [ion binding]; other site 355276007077 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 355276007078 Magnesium ion binding site [ion binding]; other site 355276007079 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 355276007080 ParB-like nuclease domain; Region: ParBc; cl02129 355276007081 Helix-turn-helix domains; Region: HTH; cl00088 355276007082 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 355276007083 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 355276007084 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 355276007085 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 355276007086 FAD binding site [chemical binding]; other site 355276007087 NMT1-like family; Region: NMT1_2; cl15260 355276007088 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 355276007089 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 355276007090 active site 355276007091 motif I; other site 355276007092 motif II; other site 355276007093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007094 NAD(P) binding pocket [chemical binding]; other site 355276007095 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 355276007096 domain interfaces; other site 355276007097 active site 355276007098 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 355276007099 dimer interface [polypeptide binding]; other site 355276007100 active site 355276007101 Schiff base residues; other site 355276007102 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 355276007103 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 355276007104 inhibitor-cofactor binding pocket; inhibition site 355276007105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276007106 catalytic residue [active] 355276007107 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 355276007108 dimer interface [polypeptide binding]; other site 355276007109 phosphorylation site [posttranslational modification] 355276007110 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276007111 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355276007112 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276007113 active site 355276007114 phosphorylation site [posttranslational modification] 355276007115 intermolecular recognition site; other site 355276007116 dimerization interface [polypeptide binding]; other site 355276007117 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 355276007118 DNA binding site [nucleotide binding] 355276007119 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 355276007120 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 355276007121 HemN C-terminal domain; Region: HemN_C; pfam06969 355276007122 protoporphyrinogen oxidase; Region: PLN02576 355276007123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007124 Ferrochelatase; Region: Ferrochelatase; pfam00762 355276007125 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 355276007126 C-terminal domain interface [polypeptide binding]; other site 355276007127 active site 355276007128 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 355276007129 active site 355276007130 N-terminal domain interface [polypeptide binding]; other site 355276007131 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 355276007132 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 355276007133 P-loop; other site 355276007134 Magnesium ion binding site [ion binding]; other site 355276007135 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 355276007136 Magnesium ion binding site [ion binding]; other site 355276007137 ParB-like partition proteins; Region: parB_part; TIGR00180 355276007138 ParB-like nuclease domain; Region: ParBc; cl02129 355276007139 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 355276007140 Acyltransferase family; Region: Acyl_transf_3; pfam01757 355276007141 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 355276007142 ligand binding site [chemical binding]; other site 355276007143 flexible hinge region; other site 355276007144 short chain dehydrogenase; Provisional; Region: PRK08251 355276007145 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 355276007146 putative NAD(P) binding site [chemical binding]; other site 355276007147 active site 355276007148 Low molecular weight phosphatase family; Region: LMWPc; cd00115 355276007149 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 355276007150 active site 355276007151 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 355276007152 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 355276007153 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 355276007154 putative active site [active] 355276007155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007156 short chain dehydrogenase; Provisional; Region: PRK06181 355276007157 NAD(P) binding site [chemical binding]; other site 355276007158 active site 355276007159 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 355276007160 putative hydrophobic ligand binding site [chemical binding]; other site 355276007161 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 355276007162 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355276007163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 355276007164 MoxR-like ATPases [General function prediction only]; Region: COG0714 355276007165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007166 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 355276007167 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 355276007168 Aerotolerance regulator N-terminal; Region: BatA; cl06567 355276007169 VWA BatA type: 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_BatA_type; cd01467 355276007170 metal ion-dependent adhesion site (MIDAS); other site 355276007171 Serpentine type 7TM GPCR chemoreceptor Sru; Region: 7TM_GPCR_Sru; pfam10322 355276007172 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 355276007173 metal ion-dependent adhesion site (MIDAS); other site 355276007174 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 355276007175 binding surface 355276007176 TPR motif; other site 355276007177 TPR repeat; Region: TPR_11; pfam13414 355276007178 Oxygen tolerance; Region: BatD; pfam13584 355276007179 heat shock protein 90; Provisional; Region: PRK05218 355276007180 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276007181 ATP binding site [chemical binding]; other site 355276007182 Mg2+ binding site [ion binding]; other site 355276007183 G-X-G motif; other site 355276007184 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 355276007185 anti sigma factor interaction site; other site 355276007186 regulatory phosphorylation site [posttranslational modification]; other site 355276007187 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 355276007188 Di-iron ligands [ion binding]; other site 355276007189 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 355276007190 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 355276007191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007192 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276007193 LAO/AO transport system ATPase; Region: lao; TIGR00750 355276007194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007196 G4 box; other site 355276007197 G5 box; other site 355276007198 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 355276007199 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 355276007200 B12 binding site [chemical binding]; other site 355276007201 cobalt ligand [ion binding]; other site 355276007202 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 355276007203 S-adenosylmethionine binding site [chemical binding]; other site 355276007204 Histidine kinase-like ATPases; This family includes several ATP-binding 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 355276007205 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 355276007206 FecR protein; Region: FecR; pfam04773 355276007207 Cache domain; Region: Cache_1; pfam02743 355276007208 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 355276007209 metal binding site [ion binding]; metal-binding site 355276007210 active site 355276007211 I-site; other site 355276007212 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276007213 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276007214 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276007215 Helix-turn-helix domains; Region: HTH; cl00088 355276007216 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 355276007217 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 355276007218 Helix-turn-helix domain; Region: HTH_18; pfam12833 355276007219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355276007220 Helix-turn-helix domain; Region: HTH_18; pfam12833 355276007221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 355276007222 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 355276007223 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276007224 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276007225 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 355276007226 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 355276007227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007228 Methyltransferase domain; Region: Methyltransf_31; pfam13847 355276007229 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 355276007230 S-adenosylmethionine binding site [chemical binding]; other site 355276007231 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 355276007232 putative active site [active] 355276007233 putative metal binding site [ion binding]; other site 355276007234 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 355276007235 binding surface 355276007236 TPR motif; other site 355276007237 TPR repeat; Region: TPR_11; pfam13414 355276007238 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 355276007239 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 355276007240 active site 355276007241 motif I; other site 355276007242 motif II; other site 355276007243 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 355276007244 Protein of unknown function (DUF1564); Region: DUF1564; pfam07600 355276007245 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 355276007246 dimerization interface [polypeptide binding]; other site 355276007247 putative DNA binding site [nucleotide binding]; other site 355276007248 putative Zn2+ binding site [ion binding]; other site 355276007249 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 355276007250 S-adenosylmethionine binding site [chemical binding]; other site 355276007251 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 355276007252 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 355276007253 oligomerization interface [polypeptide binding]; other site 355276007254 active site 355276007255 NAD+ binding site [chemical binding]; other site 355276007256 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 355276007257 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 355276007258 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 355276007259 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 355276007260 substrate binding pocket [chemical binding]; other site 355276007261 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 355276007262 B12 binding site [chemical binding]; other site 355276007263 cobalt ligand [ion binding]; other site 355276007264 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 355276007265 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 355276007266 active site 355276007267 ADP/pyrophosphate binding site [chemical binding]; other site 355276007268 dimerization interface [polypeptide binding]; other site 355276007269 allosteric effector site; other site 355276007270 fructose-1,6-bisphosphate binding site; other site 355276007271 GAF domain; Region: GAF_2; pfam13185 355276007272 GAF domain; Region: GAF; cl15785 355276007273 GAF domain; Region: GAF_2; pfam13185 355276007274 GAF domain; Region: GAF; cl15785 355276007275 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 355276007276 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 355276007277 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 355276007278 homohexameric interface [polypeptide binding]; other site 355276007279 feedback inhibition sensing region; other site 355276007280 nucleotide binding site [chemical binding]; other site 355276007281 N-acetyl-L-glutamate binding site [chemical binding]; other site 355276007282 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 355276007283 classical (c) SDRs; Region: SDR_c; cd05233 355276007284 NAD(P) binding site [chemical binding]; other site 355276007285 active site 355276007286 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 355276007287 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 355276007288 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 355276007289 protein binding site [polypeptide binding]; other site 355276007290 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 355276007291 catalytic triad [active] 355276007292 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 355276007293 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 355276007294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276007295 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276007296 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276007297 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 355276007298 DNA binding site [nucleotide binding] 355276007299 Int/Topo IB signature motif; other site 355276007300 active site 355276007301 shikimate kinase; Reviewed; Region: aroK; PRK00131 355276007302 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 355276007303 ADP binding site [chemical binding]; other site 355276007304 magnesium binding site [ion binding]; other site 355276007305 putative shikimate binding site; other site 355276007306 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 355276007307 CheD chemotactic sensory transduction; Region: CheD; cl00810 355276007308 TraB family; Region: TraB; cl12050 355276007309 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 355276007310 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 355276007311 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 355276007312 PAS domain; Region: PAS_9; pfam13426 355276007313 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 355276007314 TolB amino-terminal domain; Region: TolB_N; cl00639 355276007315 Lecithin:cholesterol acyltransferase; Region: LACT; pfam02450 355276007316 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 355276007317 active site 355276007318 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 355276007319 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; cd02619 355276007320 active site 355276007321 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 355276007322 Interdomain contacts; other site 355276007323 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 355276007324 Cytokine receptor motif; other site 355276007325 Gram-negative bacterial tonB protein; Region: TonB; cl10048 355276007326 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355276007327 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355276007328 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 355276007329 membrane ATPase/protein kinase; Provisional; Region: PRK09435 355276007330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007331 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 355276007332 Walker A; other site 355276007333 G1 box; other site 355276007334 GTP/Mg2+ binding site [chemical binding]; other site 355276007335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007336 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 355276007337 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 355276007338 active site 355276007339 substrate binding site [chemical binding]; other site 355276007340 coenzyme B12 binding site [chemical binding]; other site 355276007341 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 355276007342 B12 binding site [chemical binding]; other site 355276007343 cobalt ligand [ion binding]; other site 355276007344 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 355276007345 heterodimer interface [polypeptide binding]; other site 355276007346 substrate interaction site [chemical binding]; other site 355276007347 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 355276007348 Integral membrane protein TerC family; Region: TerC; cl10468 355276007349 YhhN-like protein; Region: YhhN; cl01505 355276007350 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 355276007351 diiron binding motif [ion binding]; other site 355276007352 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 355276007353 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 355276007354 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 355276007355 catalytic residue [active] 355276007356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276007357 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276007358 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276007359 Protease prsW family; Region: PrsW-protease; cl15823 355276007360 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 355276007361 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 355276007362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276007363 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276007364 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276007365 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 355276007366 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 355276007367 S-adenosylmethionine binding site [chemical binding]; other site 355276007368 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 355276007369 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 355276007370 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 355276007371 Protein of unknown function (DUF1574); Region: DUF1574; pfam07611 355276007372 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276007373 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 355276007374 catalytic triad [active] 355276007375 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276007376 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 355276007377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 355276007378 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 355276007379 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 355276007380 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 355276007381 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 355276007382 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 355276007383 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 355276007384 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 355276007385 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 355276007386 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 355276007387 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 355276007388 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 355276007389 N-terminal plug; other site 355276007390 ligand-binding site [chemical binding]; other site 355276007391 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 355276007392 Major Facilitator Superfamily; Region: MFS_1; pfam07690 355276007393 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 355276007394 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 355276007395 heme binding pocket [chemical binding]; other site 355276007396 heme ligand [chemical binding]; other site 355276007397 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 355276007398 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 355276007399 protein binding site [polypeptide binding]; other site 355276007400 serine endoprotease; Provisional; Region: PRK10898 355276007401 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 355276007402 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 355276007403 protein binding site [polypeptide binding]; other site 355276007404 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 355276007405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 355276007406 active site 355276007407 Peptidase family M48; Region: Peptidase_M48; cl12018 355276007408 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 355276007409 Sulfate transporter family; Region: Sulfate_transp; cl15842 355276007410 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 355276007411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007412 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 355276007413 NAD(P) binding site [chemical binding]; other site 355276007414 homodimer interface [polypeptide binding]; other site 355276007415 substrate binding site [chemical binding]; other site 355276007416 active site 355276007417 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 355276007418 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 355276007419 putative active site [active] 355276007420 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 355276007421 putative active site [active] 355276007422 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 355276007423 dimer interface [polypeptide binding]; other site 355276007424 [2Fe-2S] cluster binding site [ion binding]; other site 355276007425 Protein of unknown function (DUF3209); Region: DUF3209; pfam11483 355276007426 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 355276007427 FAD binding pocket [chemical binding]; other site 355276007428 conserved FAD binding motif [chemical binding]; other site 355276007429 phosphate binding motif [ion binding]; other site 355276007430 beta-alpha-beta structure motif; other site 355276007431 NAD binding pocket [chemical binding]; other site 355276007432 CbiD; Region: CbiD; cl00828 355276007433 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 355276007434 Precorrin-8X methylmutase; Region: CbiC; pfam02570 355276007435 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276007436 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276007437 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 355276007438 S-adenosylmethionine binding site [chemical binding]; other site 355276007439 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276007440 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276007441 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 355276007442 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 355276007443 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 355276007444 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276007445 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276007446 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 355276007447 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 355276007448 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 355276007449 homodimer interface [polypeptide binding]; other site 355276007450 Walker A motif; other site 355276007451 ATP binding site [chemical binding]; other site 355276007452 hydroxycobalamin binding site [chemical binding]; other site 355276007453 Walker B motif; other site 355276007454 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 355276007455 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 355276007456 catalytic triad [active] 355276007457 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 355276007458 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 355276007459 homotrimer interface [polypeptide binding]; other site 355276007460 Walker A motif; other site 355276007461 GTP binding site [chemical binding]; other site 355276007462 Walker B motif; other site 355276007463 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 355276007464 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 355276007465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 355276007466 homodimer interface [polypeptide binding]; other site 355276007467 catalytic residue [active] 355276007468 cobyric acid synthase; Provisional; Region: PRK00784 355276007469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 355276007471 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 355276007472 catalytic triad [active] 355276007473 CobD/Cbib protein; Region: CobD_Cbib; cl00561 355276007474 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 355276007475 catalytic core [active] 355276007476 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 355276007477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 355276007478 Transposase; Region: DEDD_Tnp_IS110; pfam01548 355276007479 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 355276007480 Integrase core domain; Region: rve_3; cl15866 355276007481 Integrase core domain; Region: rve; cl01316 355276007482 FecR protein; Region: FecR; pfam04773 355276007483 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 355276007484 FecR protein; Region: FecR; pfam04773 355276007485 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 355276007486 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 355276007487 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 355276007488 DNA binding residues [nucleotide binding] 355276007489 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 355276007490 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 355276007491 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 355276007492 active site 355276007493 nucleophile elbow; other site 355276007494 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 355276007495 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 355276007496 putative substrate translocation pore; other site 355276007497 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 355276007498 putative active site [active] 355276007499 putative metal binding site [ion binding]; other site 355276007500 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 355276007501 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 355276007502 active site 355276007503 FMN binding site [chemical binding]; other site 355276007504 substrate binding site [chemical binding]; other site 355276007505 3Fe-4S cluster binding site [ion binding]; other site 355276007506 Yip1 domain; Region: Yip1; cl12048 355276007507 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 355276007508 classical (c) SDRs; Region: SDR_c; cd05233 355276007509 NAD(P) binding site [chemical binding]; other site 355276007510 active site 355276007511 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 355276007512 intersubunit interface [polypeptide binding]; other site 355276007513 active site 355276007514 Zn2+ binding site [ion binding]; other site 355276007515 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 355276007516 Cupin domain; Region: Cupin_2; cl09118 355276007517 elongation factor P; Validated; Region: PRK00529 355276007518 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 355276007519 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 355276007520 RNA binding site [nucleotide binding]; other site 355276007521 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 355276007522 RNA binding site [nucleotide binding]; other site 355276007523 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 355276007524 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 355276007525 FeS/SAM binding site; other site 355276007526 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 355276007527 Glycogen synthase [Carbohydrate transport and metabolism]; Region: GlgA; COG0297 355276007528 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 355276007529 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 355276007530 active site 355276007531 dimer interface [polypeptide binding]; other site 355276007532 spermidine synthase; Provisional; Region: PRK00811 355276007533 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 355276007534 S-adenosylmethionine binding site [chemical binding]; other site 355276007535 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 355276007536 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 355276007537 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 355276007538 alanine racemase; Reviewed; Region: alr; PRK00053 355276007539 active site 355276007540 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 355276007541 dimer interface [polypeptide binding]; other site 355276007542 substrate binding site [chemical binding]; other site 355276007543 catalytic residues [active] 355276007544 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 355276007545 putative acyl-acceptor binding pocket; other site 355276007546 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 355276007547 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 355276007548 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 355276007549 dimer interface [polypeptide binding]; other site 355276007550 phosphorylation site [posttranslational modification] 355276007551 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 355276007552 ATP binding site [chemical binding]; other site 355276007553 Mg2+ binding site [ion binding]; other site 355276007554 G-X-G motif; other site 355276007555 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 355276007556 N-acetyl-D-glucosamine binding site [chemical binding]; other site 355276007557 catalytic residue [active] 355276007558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 355276007559 Helix-turn-helix domains; Region: HTH; cl00088 355276007560 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 355276007561 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 355276007562 substrate binding site [chemical binding]; other site 355276007563 ligand binding site [chemical binding]; other site 355276007564 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 355276007565 substrate binding site [chemical binding]; other site 355276007566 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 355276007567 ligand binding site [chemical binding]; other site 355276007568 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 355276007569 poxB regulator PoxA; Provisional; Region: PRK09350 355276007570 motif 1; other site 355276007571 dimer interface [polypeptide binding]; other site 355276007572 active site 355276007573 motif 2; other site 355276007574 motif 3; other site 355276007575 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 355276007576 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 355276007577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 355276007578 active site 355276007579 phosphorylation site [posttranslational modification] 355276007580 intermolecular recognition site; other site 355276007581 dimerization interface [polypeptide binding]; other site 355276007582 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 355276007583 DNA binding site [nucleotide binding] 355276007584 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 355276007585 aromatic arch; other site 355276007586 DCoH dimer interaction site [polypeptide binding]; other site 355276007587 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 355276007588 DCoH tetramer interaction site [polypeptide binding]; other site 355276007589 substrate binding site [chemical binding]; other site 355276007590 phosphodiesterase; Provisional; Region: PRK12704 355276007591 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 355276007592 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 355276007593 pyruvate kinase; Provisional; Region: PRK05826 355276007594 domain interfaces; other site 355276007595 active site 355276007596 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 355276007597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 355276007598 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 355276007599 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 355276007600 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 355276007601 Helix-turn-helix domains; Region: HTH; cl00088