-- dump date 20140619_141156 -- class Genbank::misc_feature -- table misc_feature_note -- id note 660470000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14088 660470000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 660470000003 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 660470000004 Walker A motif; other site 660470000005 ATP binding site [chemical binding]; other site 660470000006 Walker B motif; other site 660470000007 arginine finger; other site 660470000008 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 660470000009 DnaA box-binding interface [nucleotide binding]; other site 660470000010 Protein of unknown function (DUF1175); Region: DUF1175; pfam06672 660470000011 MG2 domain; Region: A2M_N; pfam01835 660470000012 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 660470000013 Alpha-2-macroglobulin family; Region: A2M; pfam00207 660470000014 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 660470000015 surface patch; other site 660470000016 thioester region; other site 660470000017 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 660470000018 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 660470000019 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 660470000020 active site 660470000021 Zn binding site [ion binding]; other site 660470000022 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 660470000023 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 660470000024 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 660470000025 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 660470000026 Walker A motif; other site 660470000027 ATP binding site [chemical binding]; other site 660470000028 Walker B motif; other site 660470000029 arginine finger; other site 660470000030 hypothetical protein; Provisional; Region: PRK14628 660470000031 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 660470000032 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 660470000033 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 660470000034 bifunctional phosphoglycerate kinase/triosephosphate isomerase; Provisional; Region: PRK13962 660470000035 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 660470000036 substrate binding site [chemical binding]; other site 660470000037 hinge regions; other site 660470000038 ADP binding site [chemical binding]; other site 660470000039 catalytic site [active] 660470000040 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 660470000041 substrate binding site [chemical binding]; other site 660470000042 dimer interface [polypeptide binding]; other site 660470000043 catalytic triad [active] 660470000044 Protein of unknown function DUF54; Region: DUF54; cl00585 660470000045 glutamate racemase; Provisional; Region: PRK00865 660470000046 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 660470000047 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 660470000048 phosphate binding site [ion binding]; other site 660470000049 putative substrate binding pocket [chemical binding]; other site 660470000050 dimer interface [polypeptide binding]; other site 660470000051 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 660470000052 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 660470000053 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 660470000054 ATP cone domain; Region: ATP-cone; pfam03477 660470000055 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 660470000056 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 660470000057 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 660470000058 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 660470000059 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 660470000060 dimer interface [polypeptide binding]; other site 660470000061 putative anticodon binding site; other site 660470000062 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 660470000063 motif 1; other site 660470000064 active site 660470000065 motif 2; other site 660470000066 motif 3; other site 660470000067 Yqey-like protein; Region: YqeY; pfam09424 660470000068 MutL protein; Region: MutL; pfam13941 660470000069 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 660470000070 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 660470000071 folate binding site [chemical binding]; other site 660470000072 NADP+ binding site [chemical binding]; other site 660470000073 RibD C-terminal domain; Region: RibD_C; cl17279 660470000074 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 660470000075 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 660470000076 S-adenosylmethionine binding site [chemical binding]; other site 660470000077 thymidylate kinase; Validated; Region: tmk; PRK00698 660470000078 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 660470000079 TMP-binding site; other site 660470000080 ATP-binding site [chemical binding]; other site 660470000081 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 660470000082 Clp amino terminal domain; Region: Clp_N; pfam02861 660470000083 Clp amino terminal domain; Region: Clp_N; pfam02861 660470000084 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 660470000085 Walker A motif; other site 660470000086 ATP binding site [chemical binding]; other site 660470000087 Walker B motif; other site 660470000088 arginine finger; other site 660470000089 UvrB/uvrC motif; Region: UVR; pfam02151 660470000090 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 660470000091 Walker A motif; other site 660470000092 ATP binding site [chemical binding]; other site 660470000093 Walker B motif; other site 660470000094 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 660470000095 DNA repair protein RadA; Provisional; Region: PRK11823 660470000096 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 660470000097 Walker A motif; other site 660470000098 ATP binding site [chemical binding]; other site 660470000099 Walker B motif; other site 660470000100 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 660470000101 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 660470000102 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 660470000103 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 660470000104 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 660470000105 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 660470000106 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 660470000107 active site 660470000108 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 660470000109 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 660470000110 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 660470000111 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 660470000112 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 660470000113 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 660470000114 putative active site [active] 660470000115 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 660470000116 Glutamine amidotransferase class-I; Region: GATase; pfam00117 660470000117 conserved cys residue [active] 660470000118 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 660470000119 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 660470000120 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 660470000121 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 660470000122 putative catalytic cysteine [active] 660470000123 gamma-glutamyl kinase; Provisional; Region: PRK05429 660470000124 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 660470000125 nucleotide binding site [chemical binding]; other site 660470000126 homotetrameric interface [polypeptide binding]; other site 660470000127 putative phosphate binding site [ion binding]; other site 660470000128 putative allosteric binding site; other site 660470000129 PUA domain; Region: PUA; pfam01472 660470000130 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 660470000131 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 660470000132 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470000133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 660470000134 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470000135 EamA-like transporter family; Region: EamA; pfam00892 660470000136 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 660470000137 EamA-like transporter family; Region: EamA; pfam00892 660470000138 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 660470000139 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 660470000140 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 660470000141 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 660470000142 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 660470000143 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 660470000144 purine monophosphate binding site [chemical binding]; other site 660470000145 dimer interface [polypeptide binding]; other site 660470000146 putative catalytic residues [active] 660470000147 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 660470000148 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 660470000149 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 660470000150 dimer interface [polypeptide binding]; other site 660470000151 catalytic triad [active] 660470000152 Flavin Reductases; Region: FlaRed; cl00801 660470000153 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 660470000154 EamA-like transporter family; Region: EamA; pfam00892 660470000155 EamA-like transporter family; Region: EamA; pfam00892 660470000156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 660470000157 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 660470000158 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 660470000159 Predicted amidohydrolase [General function prediction only]; Region: COG0388 660470000160 active site 660470000161 catalytic triad [active] 660470000162 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 660470000163 ATP-grasp domain; Region: ATP-grasp_4; cl17255 660470000164 Amidohydrolase; Region: Amidohydro_2; pfam04909 660470000165 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 660470000166 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470000167 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 660470000168 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 660470000169 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 660470000170 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 660470000171 catalytic loop [active] 660470000172 iron binding site [ion binding]; other site 660470000173 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 660470000174 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 660470000175 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 660470000176 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 660470000177 Nitronate monooxygenase; Region: NMO; pfam03060 660470000178 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 660470000179 FMN binding site [chemical binding]; other site 660470000180 substrate binding site [chemical binding]; other site 660470000181 putative catalytic residue [active] 660470000182 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 660470000183 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 660470000184 B12 binding site [chemical binding]; other site 660470000185 cobalt ligand [ion binding]; other site 660470000186 RmuC family; Region: RmuC; pfam02646 660470000187 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 660470000188 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 660470000189 Protein of unknown function (DUF454); Region: DUF454; cl01063 660470000190 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 660470000191 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 660470000192 tetramer interface [polypeptide binding]; other site 660470000193 heme binding pocket [chemical binding]; other site 660470000194 NADPH binding site [chemical binding]; other site 660470000195 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 660470000196 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 660470000197 FAD binding pocket [chemical binding]; other site 660470000198 FAD binding motif [chemical binding]; other site 660470000199 phosphate binding motif [ion binding]; other site 660470000200 beta-alpha-beta structure motif; other site 660470000201 NAD binding pocket [chemical binding]; other site 660470000202 Iron coordination center [ion binding]; other site 660470000203 putative oxidoreductase; Provisional; Region: PRK12831 660470000204 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470000205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470000206 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 660470000207 non-specific DNA interactions [nucleotide binding]; other site 660470000208 DNA binding site [nucleotide binding] 660470000209 sequence specific DNA binding site [nucleotide binding]; other site 660470000210 putative cAMP binding site [chemical binding]; other site 660470000211 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470000212 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470000213 nucleotide binding site [chemical binding]; other site 660470000214 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470000215 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470000216 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470000217 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 660470000218 dimer interface [polypeptide binding]; other site 660470000219 conserved gate region; other site 660470000220 putative PBP binding loops; other site 660470000221 ABC-ATPase subunit interface; other site 660470000222 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470000223 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 660470000224 dimer interface [polypeptide binding]; other site 660470000225 conserved gate region; other site 660470000226 putative PBP binding loops; other site 660470000227 ABC-ATPase subunit interface; other site 660470000228 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 660470000229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470000230 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 660470000231 dimerization interface [polypeptide binding]; other site 660470000232 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 660470000233 dimer interface [polypeptide binding]; other site 660470000234 phosphorylation site [posttranslational modification] 660470000235 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470000236 ATP binding site [chemical binding]; other site 660470000237 Mg2+ binding site [ion binding]; other site 660470000238 G-X-G motif; other site 660470000239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470000240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470000241 active site 660470000242 phosphorylation site [posttranslational modification] 660470000243 intermolecular recognition site; other site 660470000244 dimerization interface [polypeptide binding]; other site 660470000245 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 660470000246 DNA binding site [nucleotide binding] 660470000247 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 660470000248 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 660470000249 putative ligand binding site [chemical binding]; other site 660470000250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470000251 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 660470000252 dimer interface [polypeptide binding]; other site 660470000253 phosphorylation site [posttranslational modification] 660470000254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470000255 ATP binding site [chemical binding]; other site 660470000256 Mg2+ binding site [ion binding]; other site 660470000257 G-X-G motif; other site 660470000258 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470000259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470000260 active site 660470000261 phosphorylation site [posttranslational modification] 660470000262 intermolecular recognition site; other site 660470000263 dimerization interface [polypeptide binding]; other site 660470000264 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 660470000265 DNA binding site [nucleotide binding] 660470000266 Predicted amidohydrolase [General function prediction only]; Region: COG0388 660470000267 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 660470000268 active site 660470000269 catalytic triad [active] 660470000270 dimer interface [polypeptide binding]; other site 660470000271 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 660470000272 putative substrate binding pocket [chemical binding]; other site 660470000273 AC domain interface; other site 660470000274 catalytic triad [active] 660470000275 AB domain interface; other site 660470000276 interchain disulfide; other site 660470000277 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 660470000278 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 660470000279 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470000280 Cupin domain; Region: Cupin_2; pfam07883 660470000281 Domain of unknown function (DUF389); Region: DUF389; cl00781 660470000282 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 660470000283 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 660470000284 Predicted integral membrane protein [Function unknown]; Region: COG0392 660470000285 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 660470000286 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 660470000287 conserved cys residue [active] 660470000288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470000289 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 660470000290 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 660470000291 4Fe-4S binding domain; Region: Fer4; pfam00037 660470000292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470000293 HAMP domain; Region: HAMP; pfam00672 660470000294 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 660470000295 dimer interface [polypeptide binding]; other site 660470000296 phosphorylation site [posttranslational modification] 660470000297 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470000298 ATP binding site [chemical binding]; other site 660470000299 Mg2+ binding site [ion binding]; other site 660470000300 G-X-G motif; other site 660470000301 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 660470000302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470000303 active site 660470000304 phosphorylation site [posttranslational modification] 660470000305 intermolecular recognition site; other site 660470000306 dimerization interface [polypeptide binding]; other site 660470000307 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 660470000308 putative binding surface; other site 660470000309 active site 660470000310 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 660470000311 putative amphipathic alpha helix; other site 660470000312 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 660470000313 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 660470000314 active site 660470000315 catalytic site [active] 660470000316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470000317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470000318 metal binding site [ion binding]; metal-binding site 660470000319 active site 660470000320 I-site; other site 660470000321 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 660470000322 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470000323 putative substrate translocation pore; other site 660470000324 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 660470000325 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 660470000326 active site 660470000327 metal binding site [ion binding]; metal-binding site 660470000328 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 660470000329 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 660470000330 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470000331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 660470000332 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470000333 Archaeal ATPase; Region: Arch_ATPase; pfam01637 660470000334 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 660470000335 Restriction endonuclease; Region: Mrr_cat; pfam04471 660470000336 Uncharacterized conserved protein [Function unknown]; Region: COG1262 660470000337 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 660470000338 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 660470000339 putative active site [active] 660470000340 putative metal binding site [ion binding]; other site 660470000341 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 660470000342 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470000343 Zn2+ binding site [ion binding]; other site 660470000344 Mg2+ binding site [ion binding]; other site 660470000345 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 660470000346 Predicted helicase [General function prediction only]; Region: COG4889 660470000347 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 660470000348 non-specific DNA binding site [nucleotide binding]; other site 660470000349 salt bridge; other site 660470000350 sequence-specific DNA binding site [nucleotide binding]; other site 660470000351 Domain of unknown function (DUF955); Region: DUF955; cl01076 660470000352 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 660470000353 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 660470000354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 660470000355 Beta-Casp domain; Region: Beta-Casp; smart01027 660470000356 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 660470000357 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 660470000358 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470000359 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470000360 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 660470000361 putative PBP binding loops; other site 660470000362 ABC-ATPase subunit interface; other site 660470000363 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470000364 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 660470000365 dimer interface [polypeptide binding]; other site 660470000366 conserved gate region; other site 660470000367 putative PBP binding loops; other site 660470000368 ABC-ATPase subunit interface; other site 660470000369 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 660470000370 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 660470000371 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 660470000372 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 660470000373 substrate binding site [chemical binding]; other site 660470000374 ATP binding site [chemical binding]; other site 660470000375 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 660470000376 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 660470000377 nucleotide binding site [chemical binding]; other site 660470000378 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 660470000379 intersubunit interface [polypeptide binding]; other site 660470000380 active site 660470000381 zinc binding site [ion binding]; other site 660470000382 Na+ binding site [ion binding]; other site 660470000383 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 660470000384 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 660470000385 dimer interface [polypeptide binding]; other site 660470000386 active site 660470000387 metal binding site [ion binding]; metal-binding site 660470000388 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 660470000389 putative active site [active] 660470000390 putative CoA binding site [chemical binding]; other site 660470000391 nudix motif; other site 660470000392 metal binding site [ion binding]; metal-binding site 660470000393 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 660470000394 catalytic residues [active] 660470000395 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 660470000396 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 660470000397 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 660470000398 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 660470000399 aspartate kinase; Reviewed; Region: PRK06635 660470000400 putative catalytic residues [active] 660470000401 putative nucleotide binding site [chemical binding]; other site 660470000402 putative aspartate binding site [chemical binding]; other site 660470000403 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 660470000404 putative allosteric regulatory site; other site 660470000405 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 660470000406 threonine synthase; Reviewed; Region: PRK06721 660470000407 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 660470000408 homodimer interface [polypeptide binding]; other site 660470000409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470000410 catalytic residue [active] 660470000411 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 660470000412 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 660470000413 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 660470000414 active site 660470000415 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 660470000416 Ligand Binding Site [chemical binding]; other site 660470000417 Molecular Tunnel; other site 660470000418 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 660470000419 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 660470000420 B12 binding domain; Region: B12-binding; pfam02310 660470000421 B12 binding site [chemical binding]; other site 660470000422 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 660470000423 B12 cofactor binding site [chemical binding]; other site 660470000424 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 660470000425 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 660470000426 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 660470000427 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 660470000428 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 660470000429 aspartate kinase; Reviewed; Region: PRK06635 660470000430 putative catalytic residues [active] 660470000431 putative nucleotide binding site [chemical binding]; other site 660470000432 putative aspartate binding site [chemical binding]; other site 660470000433 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 660470000434 putative allosteric regulatory site; other site 660470000435 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 660470000436 threonine synthase; Reviewed; Region: PRK06721 660470000437 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 660470000438 homodimer interface [polypeptide binding]; other site 660470000439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470000440 catalytic residue [active] 660470000441 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 660470000442 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 660470000443 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 660470000444 Ligand Binding Site [chemical binding]; other site 660470000445 Molecular Tunnel; other site 660470000446 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 660470000447 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 660470000448 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 660470000449 B12 binding site [chemical binding]; other site 660470000450 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 660470000451 B12 cofactor binding site [chemical binding]; other site 660470000452 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 660470000453 Transposase IS200 like; Region: Y1_Tnp; cl00848 660470000454 GAF domain; Region: GAF_3; pfam13492 660470000455 PAS domain S-box; Region: sensory_box; TIGR00229 660470000456 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470000457 Zn2+ binding site [ion binding]; other site 660470000458 Mg2+ binding site [ion binding]; other site 660470000459 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 660470000460 putative substrate translocation pore; other site 660470000461 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470000462 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 660470000463 putative substrate translocation pore; other site 660470000464 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470000465 PemK-like protein; Region: PemK; pfam02452 660470000466 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470000467 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470000468 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 660470000469 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 660470000470 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 660470000471 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 660470000472 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 660470000473 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 660470000474 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 660470000475 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 660470000476 Walker A/P-loop; other site 660470000477 ATP binding site [chemical binding]; other site 660470000478 Q-loop/lid; other site 660470000479 ABC transporter signature motif; other site 660470000480 Walker B; other site 660470000481 D-loop; other site 660470000482 H-loop/switch region; other site 660470000483 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470000484 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 660470000485 Walker A/P-loop; other site 660470000486 ATP binding site [chemical binding]; other site 660470000487 Q-loop/lid; other site 660470000488 ABC transporter signature motif; other site 660470000489 Walker B; other site 660470000490 D-loop; other site 660470000491 H-loop/switch region; other site 660470000492 Predicted transcriptional regulators [Transcription]; Region: COG1725 660470000493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470000494 DNA-binding site [nucleotide binding]; DNA binding site 660470000495 Biofilm formation protein (YliH/bssR); Region: YliH; cl08211 660470000496 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 660470000497 PGAP1-like protein; Region: PGAP1; pfam07819 660470000498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470000499 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 660470000500 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 660470000501 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470000502 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 660470000503 Walker A/P-loop; other site 660470000504 ATP binding site [chemical binding]; other site 660470000505 Q-loop/lid; other site 660470000506 ABC transporter signature motif; other site 660470000507 Walker B; other site 660470000508 D-loop; other site 660470000509 H-loop/switch region; other site 660470000510 Transposase [DNA replication, recombination, and repair]; Region: COG5421 660470000511 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 660470000512 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 660470000513 active site 660470000514 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 660470000515 active site 660470000516 NTP binding site [chemical binding]; other site 660470000517 metal binding triad [ion binding]; metal-binding site 660470000518 antibiotic binding site [chemical binding]; other site 660470000519 HEPN domain; Region: HEPN; pfam05168 660470000520 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 660470000521 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 660470000522 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 660470000523 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 660470000524 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 660470000525 RNase E interface [polypeptide binding]; other site 660470000526 trimer interface [polypeptide binding]; other site 660470000527 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 660470000528 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 660470000529 RNase E interface [polypeptide binding]; other site 660470000530 trimer interface [polypeptide binding]; other site 660470000531 active site 660470000532 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 660470000533 RNA binding site [nucleotide binding]; other site 660470000534 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 660470000535 16S/18S rRNA binding site [nucleotide binding]; other site 660470000536 S13e-L30e interaction site [polypeptide binding]; other site 660470000537 25S rRNA binding site [nucleotide binding]; other site 660470000538 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 660470000539 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 660470000540 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 660470000541 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 660470000542 ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-like; cd04879 660470000543 L-serine binding site [chemical binding]; other site 660470000544 enolase; Provisional; Region: eno; PRK00077 660470000545 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 660470000546 dimer interface [polypeptide binding]; other site 660470000547 metal binding site [ion binding]; metal-binding site 660470000548 substrate binding pocket [chemical binding]; other site 660470000549 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 660470000550 nucleotide binding site [chemical binding]; other site 660470000551 substrate binding site [chemical binding]; other site 660470000552 elongation factor Ts; Reviewed; Region: tsf; PRK12332 660470000553 UBA/TS-N domain; Region: UBA; pfam00627 660470000554 Elongation factor TS; Region: EF_TS; pfam00889 660470000555 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 660470000556 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 660470000557 active site 660470000558 (T/H)XGH motif; other site 660470000559 Rrf2 family protein; Region: rrf2_super; TIGR00738 660470000560 Transcriptional regulator; Region: Rrf2; pfam02082 660470000561 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 660470000562 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 660470000563 GTP binding site [chemical binding]; other site 660470000564 prolyl-tRNA synthetase; Provisional; Region: PRK09194 660470000565 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 660470000566 dimer interface [polypeptide binding]; other site 660470000567 motif 1; other site 660470000568 active site 660470000569 motif 2; other site 660470000570 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 660470000571 putative deacylase active site [active] 660470000572 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 660470000573 active site 660470000574 motif 3; other site 660470000575 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 660470000576 anticodon binding site; other site 660470000577 purine nucleoside phosphorylase; Provisional; Region: PRK08202 660470000578 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470000579 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 660470000580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470000581 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 660470000582 dimer interface [polypeptide binding]; other site 660470000583 conserved gate region; other site 660470000584 putative PBP binding loops; other site 660470000585 ABC-ATPase subunit interface; other site 660470000586 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470000587 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 660470000588 dimer interface [polypeptide binding]; other site 660470000589 conserved gate region; other site 660470000590 putative PBP binding loops; other site 660470000591 ABC-ATPase subunit interface; other site 660470000592 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470000593 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470000594 Walker A/P-loop; other site 660470000595 ATP binding site [chemical binding]; other site 660470000596 Q-loop/lid; other site 660470000597 ABC transporter signature motif; other site 660470000598 Walker B; other site 660470000599 D-loop; other site 660470000600 H-loop/switch region; other site 660470000601 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470000602 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 660470000603 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470000604 Walker A/P-loop; other site 660470000605 ATP binding site [chemical binding]; other site 660470000606 Q-loop/lid; other site 660470000607 ABC transporter signature motif; other site 660470000608 Walker B; other site 660470000609 D-loop; other site 660470000610 H-loop/switch region; other site 660470000611 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470000612 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 660470000613 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 660470000614 ATP binding site [chemical binding]; other site 660470000615 putative Mg++ binding site [ion binding]; other site 660470000616 helicase superfamily c-terminal domain; Region: HELICc; smart00490 660470000617 nucleotide binding region [chemical binding]; other site 660470000618 ATP-binding site [chemical binding]; other site 660470000619 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 660470000620 hypothetical protein; Provisional; Region: PRK13670 660470000621 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14330 660470000622 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 660470000623 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 660470000624 FeS/SAM binding site; other site 660470000625 TRAM domain; Region: TRAM; cl01282 660470000626 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 660470000627 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 660470000628 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 660470000629 Peptidase M30; Region: Peptidase_M30; pfam10460 660470000630 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 660470000631 M6 family metalloprotease domain; Region: M6dom_TIGR03296 660470000632 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 660470000633 active site 660470000634 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 660470000635 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470000636 Right handed beta helix region; Region: Beta_helix; pfam13229 660470000637 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 660470000638 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 660470000639 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 660470000640 rRNA interaction site [nucleotide binding]; other site 660470000641 S8 interaction site; other site 660470000642 putative laminin-1 binding site; other site 660470000643 Oligomerisation domain; Region: Oligomerisation; pfam02410 660470000644 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 660470000645 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 660470000646 glutaminase active site [active] 660470000647 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 660470000648 dimer interface [polypeptide binding]; other site 660470000649 active site 660470000650 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 660470000651 dimer interface [polypeptide binding]; other site 660470000652 active site 660470000653 putative phosphate acyltransferase; Provisional; Region: PRK05331 660470000654 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 660470000655 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 660470000656 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470000657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470000658 Walker A/P-loop; other site 660470000659 ATP binding site [chemical binding]; other site 660470000660 Q-loop/lid; other site 660470000661 ABC transporter signature motif; other site 660470000662 Walker B; other site 660470000663 D-loop; other site 660470000664 H-loop/switch region; other site 660470000665 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 660470000666 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 660470000667 dimer interface [polypeptide binding]; other site 660470000668 conserved gate region; other site 660470000669 ABC-ATPase subunit interface; other site 660470000670 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 660470000671 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 660470000672 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 660470000673 IHF dimer interface [polypeptide binding]; other site 660470000674 IHF - DNA interface [nucleotide binding]; other site 660470000675 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 660470000676 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 660470000677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470000678 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 660470000679 Peptidase family M23; Region: Peptidase_M23; pfam01551 660470000680 3D domain; Region: 3D; cl01439 660470000681 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 660470000682 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 660470000683 dimer interface [polypeptide binding]; other site 660470000684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470000685 catalytic residue [active] 660470000686 serine O-acetyltransferase; Region: cysE; TIGR01172 660470000687 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 660470000688 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 660470000689 trimer interface [polypeptide binding]; other site 660470000690 active site 660470000691 substrate binding site [chemical binding]; other site 660470000692 CoA binding site [chemical binding]; other site 660470000693 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 660470000694 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 660470000695 Domain of unknown function DUF20; Region: UPF0118; pfam01594 660470000696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470000697 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470000698 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 660470000699 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 660470000700 putative substrate binding site [chemical binding]; other site 660470000701 nucleotide binding site [chemical binding]; other site 660470000702 nucleotide binding site [chemical binding]; other site 660470000703 homodimer interface [polypeptide binding]; other site 660470000704 ornithine carbamoyltransferase; Validated; Region: PRK02102 660470000705 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 660470000706 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 660470000707 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 660470000708 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 660470000709 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 660470000710 active site 660470000711 HIGH motif; other site 660470000712 KMSK motif region; other site 660470000713 tRNA binding surface [nucleotide binding]; other site 660470000714 DALR anticodon binding domain; Region: DALR_1; smart00836 660470000715 anticodon binding site; other site 660470000716 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 660470000717 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 660470000718 S-adenosylmethionine binding site [chemical binding]; other site 660470000719 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 660470000720 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 660470000721 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 660470000722 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 660470000723 active site 660470000724 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 660470000725 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 660470000726 Catalytic domain of Protein Kinases; Region: PKc; cd00180 660470000727 active site 660470000728 ATP binding site [chemical binding]; other site 660470000729 substrate binding site [chemical binding]; other site 660470000730 activation loop (A-loop); other site 660470000731 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 660470000732 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 660470000733 substrate binding pocket [chemical binding]; other site 660470000734 chain length determination region; other site 660470000735 substrate-Mg2+ binding site; other site 660470000736 catalytic residues [active] 660470000737 aspartate-rich region 1; other site 660470000738 active site lid residues [active] 660470000739 aspartate-rich region 2; other site 660470000740 Bifunctional nuclease; Region: DNase-RNase; pfam02577 660470000741 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 660470000742 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 660470000743 putative acyl-acceptor binding pocket; other site 660470000744 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 660470000745 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 660470000746 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 660470000747 Ligand Binding Site [chemical binding]; other site 660470000748 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470000749 TPR motif; other site 660470000750 Predicted amidohydrolase [General function prediction only]; Region: COG0388 660470000751 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 660470000752 active site 660470000753 catalytic triad [active] 660470000754 dimer interface [polypeptide binding]; other site 660470000755 translation initiation factor IF-3; Region: infC; TIGR00168 660470000756 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 660470000757 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 660470000758 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 660470000759 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 660470000760 23S rRNA binding site [nucleotide binding]; other site 660470000761 L21 binding site [polypeptide binding]; other site 660470000762 L13 binding site [polypeptide binding]; other site 660470000763 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 660470000764 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 660470000765 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 660470000766 Walker A motif; other site 660470000767 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 660470000768 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 660470000769 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 660470000770 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 660470000771 dimer interface [polypeptide binding]; other site 660470000772 active site 660470000773 glycine-pyridoxal phosphate binding site [chemical binding]; other site 660470000774 folate binding site [chemical binding]; other site 660470000775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 660470000776 active site 660470000777 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 660470000778 substrate binding site [chemical binding]; other site 660470000779 ATP binding site [chemical binding]; other site 660470000780 thymidine kinase; Provisional; Region: PRK04296 660470000781 signal recognition particle protein; Provisional; Region: PRK10867 660470000782 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 660470000783 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 660470000784 P loop; other site 660470000785 GTP binding site [chemical binding]; other site 660470000786 Signal peptide binding domain; Region: SRP_SPB; pfam02978 660470000787 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14524 660470000788 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 660470000789 KH domain; Region: KH_4; pfam13083 660470000790 G-X-X-G motif; other site 660470000791 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 660470000792 RimM N-terminal domain; Region: RimM; pfam01782 660470000793 PRC-barrel domain; Region: PRC; pfam05239 660470000794 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 660470000795 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 660470000796 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 660470000797 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 660470000798 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 660470000799 Catalytic site [active] 660470000800 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 660470000801 putative GTP cyclohydrolase; Provisional; Region: PRK13674 660470000802 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 660470000803 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 660470000804 S-adenosylmethionine binding site [chemical binding]; other site 660470000805 Predicted methyltransferases [General function prediction only]; Region: COG0313 660470000806 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 660470000807 putative SAM binding site [chemical binding]; other site 660470000808 putative homodimer interface [polypeptide binding]; other site 660470000809 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 660470000810 Peptidase family M50; Region: Peptidase_M50; pfam02163 660470000811 active site 660470000812 putative substrate binding region [chemical binding]; other site 660470000813 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 660470000814 DHH family; Region: DHH; pfam01368 660470000815 DHHA1 domain; Region: DHHA1; pfam02272 660470000816 purine nucleoside phosphorylase; Provisional; Region: PRK08202 660470000817 acyl carrier protein; Provisional; Region: acpP; PRK00982 660470000818 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 660470000819 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 660470000820 RNA binding surface [nucleotide binding]; other site 660470000821 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 660470000822 active site 660470000823 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 660470000824 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 660470000825 PEGA domain; Region: PEGA; pfam08308 660470000826 PEGA domain; Region: PEGA; pfam08308 660470000827 PEGA domain; Region: PEGA; pfam08308 660470000828 PEGA domain; Region: PEGA; pfam08308 660470000829 PEGA domain; Region: PEGA; pfam08308 660470000830 PEGA domain; Region: PEGA; pfam08308 660470000831 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 660470000832 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 660470000833 active site 660470000834 uracil binding [chemical binding]; other site 660470000835 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 660470000836 DHH family; Region: DHH; pfam01368 660470000837 DHHA1 domain; Region: DHHA1; pfam02272 660470000838 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 660470000839 rod shape-determining protein MreB; Provisional; Region: PRK13930 660470000840 MreB and similar proteins; Region: MreB_like; cd10225 660470000841 nucleotide binding site [chemical binding]; other site 660470000842 Mg binding site [ion binding]; other site 660470000843 putative protofilament interaction site [polypeptide binding]; other site 660470000844 RodZ interaction site [polypeptide binding]; other site 660470000845 Domain of unknown function (DUF368); Region: DUF368; pfam04018 660470000846 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 660470000847 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 660470000848 Walker A/P-loop; other site 660470000849 ATP binding site [chemical binding]; other site 660470000850 Q-loop/lid; other site 660470000851 ABC transporter signature motif; other site 660470000852 Walker B; other site 660470000853 D-loop; other site 660470000854 H-loop/switch region; other site 660470000855 FeS assembly protein SufB; Region: sufB; TIGR01980 660470000856 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 660470000857 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 660470000858 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 660470000859 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 660470000860 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 660470000861 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470000862 catalytic residue [active] 660470000863 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 660470000864 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 660470000865 trimerization site [polypeptide binding]; other site 660470000866 active site 660470000867 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470000868 TPR motif; other site 660470000869 TPR repeat; Region: TPR_11; pfam13414 660470000870 binding surface 660470000871 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470000872 binding surface 660470000873 TPR motif; other site 660470000874 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470000875 binding surface 660470000876 TPR motif; other site 660470000877 Preprotein translocase SecG subunit; Region: SecG; pfam03840 660470000878 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 660470000879 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 660470000880 active site 660470000881 HIGH motif; other site 660470000882 dimer interface [polypeptide binding]; other site 660470000883 KMSKS motif; other site 660470000884 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 660470000885 RNA binding surface [nucleotide binding]; other site 660470000886 S-layer homology domain; Region: SLH; pfam00395 660470000887 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 660470000888 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470000889 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 660470000890 dimer interface [polypeptide binding]; other site 660470000891 conserved gate region; other site 660470000892 putative PBP binding loops; other site 660470000893 ABC-ATPase subunit interface; other site 660470000894 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470000895 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 660470000896 dimer interface [polypeptide binding]; other site 660470000897 conserved gate region; other site 660470000898 putative PBP binding loops; other site 660470000899 ABC-ATPase subunit interface; other site 660470000900 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470000901 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_4; cd08500 660470000902 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 660470000903 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470000904 Walker A/P-loop; other site 660470000905 ATP binding site [chemical binding]; other site 660470000906 Q-loop/lid; other site 660470000907 ABC transporter signature motif; other site 660470000908 Walker B; other site 660470000909 D-loop; other site 660470000910 H-loop/switch region; other site 660470000911 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470000912 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470000913 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470000914 Walker A/P-loop; other site 660470000915 ATP binding site [chemical binding]; other site 660470000916 Q-loop/lid; other site 660470000917 ABC transporter signature motif; other site 660470000918 Walker B; other site 660470000919 D-loop; other site 660470000920 H-loop/switch region; other site 660470000921 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470000922 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 660470000923 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 660470000924 replicative DNA helicase; Region: DnaB; TIGR00665 660470000925 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 660470000926 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 660470000927 Walker A motif; other site 660470000928 ATP binding site [chemical binding]; other site 660470000929 Walker B motif; other site 660470000930 DNA binding loops [nucleotide binding] 660470000931 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 660470000932 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 660470000933 Walker A/P-loop; other site 660470000934 ATP binding site [chemical binding]; other site 660470000935 Q-loop/lid; other site 660470000936 ABC transporter signature motif; other site 660470000937 Walker B; other site 660470000938 D-loop; other site 660470000939 H-loop/switch region; other site 660470000940 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 660470000941 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 660470000942 putative oligomer interface [polypeptide binding]; other site 660470000943 putative active site [active] 660470000944 metal binding site [ion binding]; metal-binding site 660470000945 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 660470000946 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 660470000947 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 660470000948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470000949 Walker A/P-loop; other site 660470000950 ATP binding site [chemical binding]; other site 660470000951 Q-loop/lid; other site 660470000952 ABC transporter signature motif; other site 660470000953 Walker B; other site 660470000954 D-loop; other site 660470000955 H-loop/switch region; other site 660470000956 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 660470000957 O-Antigen ligase; Region: Wzy_C; pfam04932 660470000958 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 660470000959 Septum formation topological specificity factor MinE; Region: MinE; cl00538 660470000960 septum site-determining protein MinD; Region: minD_bact; TIGR01968 660470000961 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 660470000962 Switch I; other site 660470000963 Switch II; other site 660470000964 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 660470000965 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 660470000966 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 660470000967 putative RNA binding site [nucleotide binding]; other site 660470000968 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 660470000969 S-adenosylmethionine binding site [chemical binding]; other site 660470000970 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 660470000971 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 660470000972 active site 660470000973 NAD binding site [chemical binding]; other site 660470000974 metal binding site [ion binding]; metal-binding site 660470000975 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 660470000976 Competence protein; Region: Competence; pfam03772 660470000977 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 660470000978 metal binding site 2 [ion binding]; metal-binding site 660470000979 putative DNA binding helix; other site 660470000980 metal binding site 1 [ion binding]; metal-binding site 660470000981 dimer interface [polypeptide binding]; other site 660470000982 structural Zn2+ binding site [ion binding]; other site 660470000983 transcription termination factor NusA; Region: NusA; TIGR01953 660470000984 NusA N-terminal domain; Region: NusA_N; pfam08529 660470000985 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 660470000986 RNA binding site [nucleotide binding]; other site 660470000987 homodimer interface [polypeptide binding]; other site 660470000988 NusA-like KH domain; Region: KH_5; pfam13184 660470000989 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 660470000990 G-X-X-G motif; other site 660470000991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 660470000992 Sm and related proteins; Region: Sm_like; cl00259 660470000993 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 660470000994 putative oligomer interface [polypeptide binding]; other site 660470000995 putative RNA binding site [nucleotide binding]; other site 660470000996 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 660470000997 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 660470000998 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 660470000999 RNA binding surface [nucleotide binding]; other site 660470001000 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 660470001001 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 660470001002 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 660470001003 oligomerization interface [polypeptide binding]; other site 660470001004 active site 660470001005 metal binding site [ion binding]; metal-binding site 660470001006 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 660470001007 glutamate formiminotransferase; Region: FtcD; TIGR02024 660470001008 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 660470001009 Formiminotransferase domain; Region: FTCD; pfam02971 660470001010 imidazolonepropionase; Validated; Region: PRK09356 660470001011 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 660470001012 active site 660470001013 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 660470001014 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 660470001015 Domain of unknown function DUF21; Region: DUF21; pfam01595 660470001016 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 660470001017 Transporter associated domain; Region: CorC_HlyC; smart01091 660470001018 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 660470001019 active site 660470001020 catalytic motif [active] 660470001021 Zn binding site [ion binding]; other site 660470001022 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 660470001023 dimer interface [polypeptide binding]; other site 660470001024 ADP-ribose binding site [chemical binding]; other site 660470001025 active site 660470001026 nudix motif; other site 660470001027 metal binding site [ion binding]; metal-binding site 660470001028 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 660470001029 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 660470001030 HIGH motif; other site 660470001031 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 660470001032 active site 660470001033 KMSKS motif; other site 660470001034 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470001035 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470001036 TM-ABC transporter signature motif; other site 660470001037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470001038 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470001039 TM-ABC transporter signature motif; other site 660470001040 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 660470001041 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470001042 Walker A/P-loop; other site 660470001043 ATP binding site [chemical binding]; other site 660470001044 Q-loop/lid; other site 660470001045 ABC transporter signature motif; other site 660470001046 Walker B; other site 660470001047 D-loop; other site 660470001048 H-loop/switch region; other site 660470001049 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470001050 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 660470001051 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 660470001052 ligand binding site [chemical binding]; other site 660470001053 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 660470001054 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 660470001055 ATP-binding site [chemical binding]; other site 660470001056 Sugar specificity; other site 660470001057 Pyrimidine base specificity; other site 660470001058 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 660470001059 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 660470001060 CoA binding domain; Region: CoA_binding; smart00881 660470001061 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 660470001062 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 660470001063 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 660470001064 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 660470001065 FeS/SAM binding site; other site 660470001066 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 660470001067 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 660470001068 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 660470001069 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 660470001070 recombinase A; Provisional; Region: recA; PRK09354 660470001071 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 660470001072 hexamer interface [polypeptide binding]; other site 660470001073 Walker A motif; other site 660470001074 ATP binding site [chemical binding]; other site 660470001075 Walker B motif; other site 660470001076 RecX family; Region: RecX; cl00936 660470001077 phosphodiesterase; Provisional; Region: PRK12704 660470001078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470001079 Zn2+ binding site [ion binding]; other site 660470001080 Mg2+ binding site [ion binding]; other site 660470001081 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 660470001082 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 660470001083 Ligand Binding Site [chemical binding]; other site 660470001084 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 660470001085 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 660470001086 Walker A motif; other site 660470001087 ATP binding site [chemical binding]; other site 660470001088 Walker B motif; other site 660470001089 arginine finger; other site 660470001090 Peptidase family M41; Region: Peptidase_M41; pfam01434 660470001091 Predicted thioesterase [General function prediction only]; Region: COG5496 660470001092 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 660470001093 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470001094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470001095 active site 660470001096 phosphorylation site [posttranslational modification] 660470001097 intermolecular recognition site; other site 660470001098 dimerization interface [polypeptide binding]; other site 660470001099 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 660470001100 DNA binding site [nucleotide binding] 660470001101 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 660470001102 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470001103 putative active site [active] 660470001104 heme pocket [chemical binding]; other site 660470001105 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 660470001106 dimer interface [polypeptide binding]; other site 660470001107 phosphorylation site [posttranslational modification] 660470001108 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470001109 ATP binding site [chemical binding]; other site 660470001110 Mg2+ binding site [ion binding]; other site 660470001111 G-X-G motif; other site 660470001112 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 660470001113 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 660470001114 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 660470001115 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 660470001116 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 660470001117 Predicted periplasmic protein [Function unknown]; Region: COG3698 660470001118 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 660470001119 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 660470001120 elongation factor G; Reviewed; Region: PRK12740 660470001121 G1 box; other site 660470001122 putative GEF interaction site [polypeptide binding]; other site 660470001123 GTP/Mg2+ binding site [chemical binding]; other site 660470001124 Switch I region; other site 660470001125 G2 box; other site 660470001126 G3 box; other site 660470001127 Switch II region; other site 660470001128 G4 box; other site 660470001129 G5 box; other site 660470001130 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 660470001131 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 660470001132 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 660470001133 Protein of unknown function (DUF503); Region: DUF503; pfam04456 660470001134 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 660470001135 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 660470001136 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 660470001137 GAF domain; Region: GAF_2; pfam13185 660470001138 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 660470001139 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 660470001140 dimer interface [polypeptide binding]; other site 660470001141 active site 660470001142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 660470001143 catalytic residues [active] 660470001144 substrate binding site [chemical binding]; other site 660470001145 Rhomboid family; Region: Rhomboid; pfam01694 660470001146 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 660470001147 Domain of unknown function (DUF814); Region: DUF814; pfam05670 660470001148 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 660470001149 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 660470001150 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 660470001151 nudix motif; other site 660470001152 DHH family; Region: DHH; pfam01368 660470001153 FOG: CBS domain [General function prediction only]; Region: COG0517 660470001154 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 660470001155 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 660470001156 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 660470001157 active site 660470001158 NTP binding site [chemical binding]; other site 660470001159 metal binding triad [ion binding]; metal-binding site 660470001160 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 660470001161 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 660470001162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470001163 active site 660470001164 phosphorylation site [posttranslational modification] 660470001165 intermolecular recognition site; other site 660470001166 dimerization interface [polypeptide binding]; other site 660470001167 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 660470001168 Walker A motif; other site 660470001169 ATP binding site [chemical binding]; other site 660470001170 Walker B motif; other site 660470001171 arginine finger; other site 660470001172 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 660470001173 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 660470001174 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 660470001175 dimer interface [polypeptide binding]; other site 660470001176 phosphorylation site [posttranslational modification] 660470001177 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470001178 ATP binding site [chemical binding]; other site 660470001179 Mg2+ binding site [ion binding]; other site 660470001180 G-X-G motif; other site 660470001181 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 660470001182 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 660470001183 GIY-YIG motif/motif A; other site 660470001184 putative active site [active] 660470001185 putative metal binding site [ion binding]; other site 660470001186 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 660470001187 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 660470001188 dimer interface [polypeptide binding]; other site 660470001189 active site 660470001190 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 660470001191 substrate binding site [chemical binding]; other site 660470001192 catalytic residue [active] 660470001193 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 660470001194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470001195 Coenzyme A binding pocket [chemical binding]; other site 660470001196 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470001197 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 660470001198 dimer interface [polypeptide binding]; other site 660470001199 conserved gate region; other site 660470001200 putative PBP binding loops; other site 660470001201 ABC-ATPase subunit interface; other site 660470001202 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 660470001203 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 660470001204 ABC-ATPase subunit interface; other site 660470001205 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470001206 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470001207 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 660470001208 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 660470001209 NAD binding site [chemical binding]; other site 660470001210 sugar binding site [chemical binding]; other site 660470001211 divalent metal binding site [ion binding]; other site 660470001212 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 660470001213 dimer interface [polypeptide binding]; other site 660470001214 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 660470001215 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 660470001216 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 660470001217 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 660470001218 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 660470001219 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 660470001220 motif II; other site 660470001221 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 660470001222 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 660470001223 Substrate-binding site [chemical binding]; other site 660470001224 Substrate specificity [chemical binding]; other site 660470001225 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 660470001226 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 660470001227 Substrate-binding site [chemical binding]; other site 660470001228 Substrate specificity [chemical binding]; other site 660470001229 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 660470001230 MPT binding site; other site 660470001231 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 660470001232 carbohydrate binding site [chemical binding]; other site 660470001233 pullulanase, type I; Region: pulA_typeI; TIGR02104 660470001234 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 660470001235 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 660470001236 Ca binding site [ion binding]; other site 660470001237 active site 660470001238 catalytic site [active] 660470001239 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 660470001240 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 660470001241 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 660470001242 alanine racemase; Reviewed; Region: alr; PRK00053 660470001243 active site 660470001244 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 660470001245 dimer interface [polypeptide binding]; other site 660470001246 substrate binding site [chemical binding]; other site 660470001247 catalytic residues [active] 660470001248 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 660470001249 generic binding surface I; other site 660470001250 generic binding surface II; other site 660470001251 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470001252 Zn2+ binding site [ion binding]; other site 660470001253 Mg2+ binding site [ion binding]; other site 660470001254 DNA topoisomerase I; Validated; Region: PRK05582 660470001255 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 660470001256 active site 660470001257 interdomain interaction site; other site 660470001258 putative metal-binding site [ion binding]; other site 660470001259 nucleotide binding site [chemical binding]; other site 660470001260 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 660470001261 domain I; other site 660470001262 DNA binding groove [nucleotide binding] 660470001263 phosphate binding site [ion binding]; other site 660470001264 domain II; other site 660470001265 domain III; other site 660470001266 nucleotide binding site [chemical binding]; other site 660470001267 catalytic site [active] 660470001268 domain IV; other site 660470001269 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 660470001270 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 660470001271 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 660470001272 ATP-grasp domain; Region: ATP-grasp_4; cl17255 660470001273 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 660470001274 active site 660470001275 HslU subunit interaction site [polypeptide binding]; other site 660470001276 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 660470001277 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 660470001278 Walker A motif; other site 660470001279 ATP binding site [chemical binding]; other site 660470001280 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 660470001281 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 660470001282 DNA protecting protein DprA; Region: dprA; TIGR00732 660470001283 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 660470001284 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 660470001285 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 660470001286 intersubunit interface [polypeptide binding]; other site 660470001287 active site 660470001288 zinc binding site [ion binding]; other site 660470001289 Na+ binding site [ion binding]; other site 660470001290 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 660470001291 propionate/acetate kinase; Provisional; Region: PRK12379 660470001292 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 660470001293 ligand binding site [chemical binding]; other site 660470001294 flexible hinge region; other site 660470001295 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 660470001296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470001297 Coenzyme A binding pocket [chemical binding]; other site 660470001298 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 660470001299 EDD domain protein, DegV family; Region: DegV; TIGR00762 660470001300 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 660470001301 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470001302 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470001303 DNA binding site [nucleotide binding] 660470001304 domain linker motif; other site 660470001305 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470001306 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 660470001307 dimer interface [polypeptide binding]; other site 660470001308 conserved gate region; other site 660470001309 putative PBP binding loops; other site 660470001310 ABC-ATPase subunit interface; other site 660470001311 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470001312 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 660470001313 dimer interface [polypeptide binding]; other site 660470001314 conserved gate region; other site 660470001315 ABC-ATPase subunit interface; other site 660470001316 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470001317 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470001318 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470001319 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 660470001320 6-phosphofructokinase; Provisional; Region: PRK14072 660470001321 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 660470001322 active site 660470001323 ADP/pyrophosphate binding site [chemical binding]; other site 660470001324 dimerization interface [polypeptide binding]; other site 660470001325 allosteric effector site; other site 660470001326 fructose-1,6-bisphosphate binding site; other site 660470001327 aspartate aminotransferase; Provisional; Region: PRK07568 660470001328 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 660470001329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470001330 homodimer interface [polypeptide binding]; other site 660470001331 catalytic residue [active] 660470001332 REJ domain; Region: REJ; pfam02010 660470001333 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 660470001334 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 660470001335 catalytic loop [active] 660470001336 iron binding site [ion binding]; other site 660470001337 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 660470001338 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 660470001339 4Fe-4S binding domain; Region: Fer4; pfam00037 660470001340 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 660470001341 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 660470001342 Bacterial sugar transferase; Region: Bac_transf; pfam02397 660470001343 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 660470001344 putative active site [active] 660470001345 putative metal binding site [ion binding]; other site 660470001346 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 660470001347 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 660470001348 Interdomain contacts; other site 660470001349 Cytokine receptor motif; other site 660470001350 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470001351 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_11; cd08516 660470001352 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470001353 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 660470001354 dimer interface [polypeptide binding]; other site 660470001355 conserved gate region; other site 660470001356 putative PBP binding loops; other site 660470001357 ABC-ATPase subunit interface; other site 660470001358 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470001359 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 660470001360 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 660470001361 dimer interface [polypeptide binding]; other site 660470001362 conserved gate region; other site 660470001363 putative PBP binding loops; other site 660470001364 ABC-ATPase subunit interface; other site 660470001365 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 660470001366 Predicted dehydrogenase [General function prediction only]; Region: COG0579 660470001367 hydroxyglutarate oxidase; Provisional; Region: PRK11728 660470001368 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 660470001369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 660470001370 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470001371 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470001372 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 660470001373 asparagine synthetase A; Reviewed; Region: PRK06462 660470001374 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 660470001375 motif 1; other site 660470001376 dimer interface [polypeptide binding]; other site 660470001377 active site 660470001378 motif 2; other site 660470001379 motif 3; other site 660470001380 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 660470001381 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 660470001382 FeS/SAM binding site; other site 660470001383 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 660470001384 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 660470001385 Walker A/P-loop; other site 660470001386 ATP binding site [chemical binding]; other site 660470001387 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 660470001388 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 660470001389 ABC transporter signature motif; other site 660470001390 Walker B; other site 660470001391 D-loop; other site 660470001392 H-loop/switch region; other site 660470001393 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 660470001394 EamA-like transporter family; Region: EamA; pfam00892 660470001395 EamA-like transporter family; Region: EamA; pfam00892 660470001396 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 660470001397 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 660470001398 active site 660470001399 homodimer interface [polypeptide binding]; other site 660470001400 catalytic site [active] 660470001401 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 660470001402 N-acetyl-D-glucosamine binding site [chemical binding]; other site 660470001403 catalytic residue [active] 660470001404 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 660470001405 dimer interface [polypeptide binding]; other site 660470001406 [2Fe-2S] cluster binding site [ion binding]; other site 660470001407 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 660470001408 SLBB domain; Region: SLBB; pfam10531 660470001409 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 660470001410 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 660470001411 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 660470001412 putative dimer interface [polypeptide binding]; other site 660470001413 [2Fe-2S] cluster binding site [ion binding]; other site 660470001414 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 660470001415 dimer interface [polypeptide binding]; other site 660470001416 [2Fe-2S] cluster binding site [ion binding]; other site 660470001417 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 660470001418 SLBB domain; Region: SLBB; pfam10531 660470001419 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 660470001420 4Fe-4S binding domain; Region: Fer4; pfam00037 660470001421 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 660470001422 4Fe-4S binding domain; Region: Fer4; pfam00037 660470001423 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 660470001424 dimer interface [polypeptide binding]; other site 660470001425 [2Fe-2S] cluster binding site [ion binding]; other site 660470001426 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 660470001427 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 660470001428 putative dimer interface [polypeptide binding]; other site 660470001429 [2Fe-2S] cluster binding site [ion binding]; other site 660470001430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 660470001431 active site 660470001432 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 660470001433 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 660470001434 active site 660470001435 dimer interface [polypeptide binding]; other site 660470001436 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 660470001437 dimer interface [polypeptide binding]; other site 660470001438 active site 660470001439 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 660470001440 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 660470001441 CoA-binding site [chemical binding]; other site 660470001442 ATP-binding [chemical binding]; other site 660470001443 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470001444 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 660470001445 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 660470001446 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 660470001447 dimer interface [polypeptide binding]; other site 660470001448 conserved gate region; other site 660470001449 putative PBP binding loops; other site 660470001450 ABC-ATPase subunit interface; other site 660470001451 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 660470001452 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 660470001453 Walker A/P-loop; other site 660470001454 ATP binding site [chemical binding]; other site 660470001455 Q-loop/lid; other site 660470001456 ABC transporter signature motif; other site 660470001457 Walker B; other site 660470001458 D-loop; other site 660470001459 H-loop/switch region; other site 660470001460 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 660470001461 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 660470001462 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 660470001463 pyruvate phosphate dikinase; Provisional; Region: PRK09279 660470001464 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 660470001465 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 660470001466 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 660470001467 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 660470001468 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 660470001469 Ferredoxin [Energy production and conversion]; Region: COG1146 660470001470 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 660470001471 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 660470001472 dimer interface [polypeptide binding]; other site 660470001473 PYR/PP interface [polypeptide binding]; other site 660470001474 TPP binding site [chemical binding]; other site 660470001475 substrate binding site [chemical binding]; other site 660470001476 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 660470001477 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 660470001478 Uncharacterized conserved protein [Function unknown]; Region: COG1633 660470001479 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 660470001480 diiron binding motif [ion binding]; other site 660470001481 Permease family; Region: Xan_ur_permease; pfam00860 660470001482 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 660470001483 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 660470001484 Uncharacterized conserved protein [Function unknown]; Region: COG0327 660470001485 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 660470001486 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 660470001487 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 660470001488 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 660470001489 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 660470001490 Apoptosis inhibitory protein 5 (API5); Region: API5; pfam05918 660470001491 Citrate transporter; Region: CitMHS; pfam03600 660470001492 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 660470001493 active site 660470001494 Zn binding site [ion binding]; other site 660470001495 Peptidase family C69; Region: Peptidase_C69; cl17793 660470001496 Peptidase family C69; Region: Peptidase_C69; cl17793 660470001497 DEAD-like helicases superfamily; Region: DEXDc; smart00487 660470001498 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 660470001499 ATP binding site [chemical binding]; other site 660470001500 putative Mg++ binding site [ion binding]; other site 660470001501 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 660470001502 nucleotide binding region [chemical binding]; other site 660470001503 ATP-binding site [chemical binding]; other site 660470001504 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 660470001505 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470001506 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 660470001507 dimer interface [polypeptide binding]; other site 660470001508 conserved gate region; other site 660470001509 ABC-ATPase subunit interface; other site 660470001510 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 660470001511 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 660470001512 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470001513 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470001514 PrcB C-terminal; Region: PrcB_C; pfam14343 660470001515 photolyase PhrII; Region: phr2; TIGR00591 660470001516 DNA photolyase; Region: DNA_photolyase; pfam00875 660470001517 Protein of unknown function (DUF523); Region: DUF523; pfam04463 660470001518 Uncharacterized conserved protein [Function unknown]; Region: COG3272 660470001519 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 660470001520 Epoxide hydrolase N terminus; Region: EHN; pfam06441 660470001521 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470001522 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 660470001523 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 660470001524 benzoate transport; Region: 2A0115; TIGR00895 660470001525 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 660470001526 putative substrate translocation pore; other site 660470001527 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 660470001528 HTH domain; Region: HTH_11; pfam08279 660470001529 3H domain; Region: 3H; pfam02829 660470001530 septum formation inhibitor; Provisional; Region: minC; PRK13992 660470001531 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 660470001532 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 660470001533 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 660470001534 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 660470001535 oligomer interface [polypeptide binding]; other site 660470001536 active site 660470001537 metal binding site [ion binding]; metal-binding site 660470001538 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 660470001539 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 660470001540 oligomer interface [polypeptide binding]; other site 660470001541 active site 660470001542 metal binding site [ion binding]; metal-binding site 660470001543 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 660470001544 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 660470001545 oligomer interface [polypeptide binding]; other site 660470001546 active site 660470001547 metal binding site [ion binding]; metal-binding site 660470001548 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 660470001549 active site 660470001550 NAD binding site [chemical binding]; other site 660470001551 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 660470001552 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 660470001553 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 660470001554 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 660470001555 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 660470001556 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 660470001557 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 660470001558 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 660470001559 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 660470001560 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 660470001561 helix-hairpin-helix signature motif; other site 660470001562 substrate binding pocket [chemical binding]; other site 660470001563 active site 660470001564 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 660470001565 Glucose inhibited division protein A; Region: GIDA; pfam01134 660470001566 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 660470001567 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470001568 TPR repeat; Region: TPR_11; pfam13414 660470001569 TPR motif; other site 660470001570 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 660470001571 DRTGG domain; Region: DRTGG; pfam07085 660470001572 FOG: CBS domain [General function prediction only]; Region: COG0517 660470001573 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 660470001574 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 660470001575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470001576 ATP binding site [chemical binding]; other site 660470001577 Mg2+ binding site [ion binding]; other site 660470001578 G-X-G motif; other site 660470001579 DRTGG domain; Region: DRTGG; pfam07085 660470001580 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 660470001581 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 660470001582 active site 660470001583 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470001584 ATP binding site [chemical binding]; other site 660470001585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470001586 Mg2+ binding site [ion binding]; other site 660470001587 G-X-G motif; other site 660470001588 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 660470001589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 660470001590 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 660470001591 Surface antigen; Region: Bac_surface_Ag; pfam01103 660470001592 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 660470001593 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 660470001594 active site 660470001595 Zn binding site [ion binding]; other site 660470001596 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 660470001597 LexA repressor; Validated; Region: PRK00215 660470001598 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 660470001599 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 660470001600 Catalytic site [active] 660470001601 DNA gyrase subunit A; Validated; Region: PRK05560 660470001602 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 660470001603 CAP-like domain; other site 660470001604 active site 660470001605 primary dimer interface [polypeptide binding]; other site 660470001606 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 660470001607 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 660470001608 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 660470001609 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 660470001610 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 660470001611 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 660470001612 active site 660470001613 HIGH motif; other site 660470001614 KMSKS motif; other site 660470001615 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 660470001616 anticodon binding site; other site 660470001617 tRNA binding surface [nucleotide binding]; other site 660470001618 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 660470001619 dimer interface [polypeptide binding]; other site 660470001620 putative tRNA-binding site [nucleotide binding]; other site 660470001621 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 660470001622 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 660470001623 Chain length determinant protein; Region: Wzz; pfam02706 660470001624 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 660470001625 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 660470001626 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 660470001627 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 660470001628 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 660470001629 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 660470001630 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 660470001631 SLBB domain; Region: SLBB; pfam10531 660470001632 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 660470001633 SLBB domain; Region: SLBB; pfam10531 660470001634 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 660470001635 SLBB domain; Region: SLBB; pfam10531 660470001636 SLBB domain; Region: SLBB; pfam10531 660470001637 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 660470001638 SLBB domain; Region: SLBB; pfam10531 660470001639 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 660470001640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470001641 active site 660470001642 phosphorylation site [posttranslational modification] 660470001643 intermolecular recognition site; other site 660470001644 dimerization interface [polypeptide binding]; other site 660470001645 GAF domain; Region: GAF; pfam01590 660470001646 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470001647 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 660470001648 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 660470001649 PAS domain; Region: PAS; smart00091 660470001650 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 660470001651 dimer interface [polypeptide binding]; other site 660470001652 phosphorylation site [posttranslational modification] 660470001653 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470001654 ATP binding site [chemical binding]; other site 660470001655 Mg2+ binding site [ion binding]; other site 660470001656 G-X-G motif; other site 660470001657 Uncharacterized conserved protein [Function unknown]; Region: COG1656 660470001658 Protein of unknown function DUF82; Region: DUF82; pfam01927 660470001659 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 660470001660 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 660470001661 S-adenosylmethionine binding site [chemical binding]; other site 660470001662 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 660470001663 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 660470001664 ssDNA binding site; other site 660470001665 generic binding surface II; other site 660470001666 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 660470001667 ATP binding site [chemical binding]; other site 660470001668 putative Mg++ binding site [ion binding]; other site 660470001669 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 660470001670 nucleotide binding region [chemical binding]; other site 660470001671 ATP-binding site [chemical binding]; other site 660470001672 EDD domain protein, DegV family; Region: DegV; TIGR00762 660470001673 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 660470001674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 660470001675 active site 660470001676 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 660470001677 S-adenosylmethionine binding site [chemical binding]; other site 660470001678 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 660470001679 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 660470001680 dimer interface [polypeptide binding]; other site 660470001681 active site 660470001682 acyl carrier protein; Provisional; Region: acpP; PRK00982 660470001683 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 660470001684 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 660470001685 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 660470001686 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 660470001687 FMN binding site [chemical binding]; other site 660470001688 substrate binding site [chemical binding]; other site 660470001689 putative catalytic residue [active] 660470001690 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 660470001691 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 660470001692 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 660470001693 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 660470001694 protein binding site [polypeptide binding]; other site 660470001695 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 660470001696 protein binding site [polypeptide binding]; other site 660470001697 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 660470001698 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 660470001699 transmembrane helices; other site 660470001700 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 660470001701 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 660470001702 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 660470001703 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 660470001704 FeS/SAM binding site; other site 660470001705 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 660470001706 catalytic center binding site [active] 660470001707 ATP binding site [chemical binding]; other site 660470001708 B12 binding domain; Region: B12-binding; pfam02310 660470001709 B12 binding site [chemical binding]; other site 660470001710 Radical SAM superfamily; Region: Radical_SAM; pfam04055 660470001711 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 660470001712 FeS/SAM binding site; other site 660470001713 Type III pantothenate kinase; Region: Pan_kinase; cl17198 660470001714 GMP synthase; Reviewed; Region: guaA; PRK00074 660470001715 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 660470001716 AMP/PPi binding site [chemical binding]; other site 660470001717 candidate oxyanion hole; other site 660470001718 catalytic triad [active] 660470001719 potential glutamine specificity residues [chemical binding]; other site 660470001720 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 660470001721 ATP Binding subdomain [chemical binding]; other site 660470001722 Dimerization subdomain; other site 660470001723 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 660470001724 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 660470001725 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 660470001726 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 660470001727 intersubunit interface [polypeptide binding]; other site 660470001728 active site 660470001729 catalytic residue [active] 660470001730 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470001731 Zn2+ binding site [ion binding]; other site 660470001732 Mg2+ binding site [ion binding]; other site 660470001733 hypothetical protein; Reviewed; Region: PRK00024 660470001734 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 660470001735 MPN+ (JAMM) motif; other site 660470001736 Zinc-binding site [ion binding]; other site 660470001737 Maf-like protein; Region: Maf; pfam02545 660470001738 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 660470001739 active site 660470001740 dimer interface [polypeptide binding]; other site 660470001741 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 660470001742 Protein of unknown function (DUF1312); Region: DUF1312; pfam07009 660470001743 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 660470001744 ApbE family; Region: ApbE; pfam02424 660470001745 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 660470001746 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 660470001747 FeS/SAM binding site; other site 660470001748 AMMECR1; Region: AMMECR1; pfam01871 660470001749 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 660470001750 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 660470001751 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 660470001752 active site 660470001753 ADP/pyrophosphate binding site [chemical binding]; other site 660470001754 dimerization interface [polypeptide binding]; other site 660470001755 allosteric effector site; other site 660470001756 fructose-1,6-bisphosphate binding site; other site 660470001757 ribonuclease R; Region: RNase_R; TIGR02063 660470001758 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 660470001759 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 660470001760 RNB domain; Region: RNB; pfam00773 660470001761 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 660470001762 RNA binding site [nucleotide binding]; other site 660470001763 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470001764 TPR motif; other site 660470001765 TPR repeat; Region: TPR_11; pfam13414 660470001766 binding surface 660470001767 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470001768 binding surface 660470001769 Tetratricopeptide repeat; Region: TPR_16; pfam13432 660470001770 TPR motif; other site 660470001771 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 660470001772 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 660470001773 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 660470001774 RNA/DNA hybrid binding site [nucleotide binding]; other site 660470001775 active site 660470001776 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_3; cd08770 660470001777 SxDxEG motif; other site 660470001778 putative active site [active] 660470001779 putative metal binding site [ion binding]; other site 660470001780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470001781 Coenzyme A binding pocket [chemical binding]; other site 660470001782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470001783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470001784 metal binding site [ion binding]; metal-binding site 660470001785 active site 660470001786 I-site; other site 660470001787 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 660470001788 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 660470001789 FOG: WD40 repeat [General function prediction only]; Region: COG2319 660470001790 structural tetrad; other site 660470001791 PQQ-like domain; Region: PQQ_2; pfam13360 660470001792 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 660470001793 active site 660470001794 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 660470001795 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 660470001796 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 660470001797 Peptidase family C69; Region: Peptidase_C69; cl17793 660470001798 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 660470001799 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 660470001800 oligomer interface [polypeptide binding]; other site 660470001801 metal binding site [ion binding]; metal-binding site 660470001802 metal binding site [ion binding]; metal-binding site 660470001803 Cl binding site [ion binding]; other site 660470001804 aspartate ring; other site 660470001805 basic sphincter; other site 660470001806 putative hydrophobic gate; other site 660470001807 periplasmic entrance; other site 660470001808 PAS domain S-box; Region: sensory_box; TIGR00229 660470001809 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470001810 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470001811 Zn2+ binding site [ion binding]; other site 660470001812 Mg2+ binding site [ion binding]; other site 660470001813 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 660470001814 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 660470001815 active site 660470001816 motif I; other site 660470001817 motif II; other site 660470001818 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 660470001819 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 660470001820 Walker A motif; other site 660470001821 homodimer interface [polypeptide binding]; other site 660470001822 ATP binding site [chemical binding]; other site 660470001823 hydroxycobalamin binding site [chemical binding]; other site 660470001824 Walker B motif; other site 660470001825 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 660470001826 CPxP motif; other site 660470001827 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 660470001828 Sulphur transport; Region: Sulf_transp; pfam04143 660470001829 DsrE/DsrF-like family; Region: DrsE; cl00672 660470001830 DsrE/DsrF-like family; Region: DrsE; cl00672 660470001831 DsrH like protein; Region: DsrH; cl17347 660470001832 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 660470001833 dimerization interface [polypeptide binding]; other site 660470001834 putative DNA binding site [nucleotide binding]; other site 660470001835 putative Zn2+ binding site [ion binding]; other site 660470001836 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 660470001837 CPxP motif; other site 660470001838 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 660470001839 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 660470001840 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470001841 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 660470001842 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 660470001843 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 660470001844 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 660470001845 H+ Antiporter protein; Region: 2A0121; TIGR00900 660470001846 putative substrate translocation pore; other site 660470001847 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470001848 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 660470001849 substrate binding site [chemical binding]; other site 660470001850 ATP binding site [chemical binding]; other site 660470001851 Transposase [DNA replication, recombination, and repair]; Region: COG5421 660470001852 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 660470001853 transposase; Provisional; Region: PRK06526 660470001854 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 660470001855 Walker A motif; other site 660470001856 ATP binding site [chemical binding]; other site 660470001857 Walker B motif; other site 660470001858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 660470001859 Integrase core domain; Region: rve; pfam00665 660470001860 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 660470001861 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 660470001862 putative active site [active] 660470001863 putative metal binding site [ion binding]; other site 660470001864 PAS domain S-box; Region: sensory_box; TIGR00229 660470001865 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470001866 putative active site [active] 660470001867 heme pocket [chemical binding]; other site 660470001868 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470001869 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 660470001870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470001871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470001872 metal binding site [ion binding]; metal-binding site 660470001873 active site 660470001874 I-site; other site 660470001875 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470001876 PAS domain; Region: PAS_9; pfam13426 660470001877 putative active site [active] 660470001878 heme pocket [chemical binding]; other site 660470001879 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470001880 GAF domain; Region: GAF; pfam01590 660470001881 PAS domain; Region: PAS_9; pfam13426 660470001882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470001883 Zn2+ binding site [ion binding]; other site 660470001884 Mg2+ binding site [ion binding]; other site 660470001885 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 660470001886 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 660470001887 Protein of unknown function, DUF606; Region: DUF606; pfam04657 660470001888 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470001889 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 660470001890 Walker A/P-loop; other site 660470001891 ATP binding site [chemical binding]; other site 660470001892 Q-loop/lid; other site 660470001893 ABC transporter signature motif; other site 660470001894 Walker B; other site 660470001895 D-loop; other site 660470001896 H-loop/switch region; other site 660470001897 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 660470001898 FtsX-like permease family; Region: FtsX; pfam02687 660470001899 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 660470001900 S-adenosylmethionine binding site [chemical binding]; other site 660470001901 Methyltransferase domain; Region: Methyltransf_23; pfam13489 660470001902 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 660470001903 S-adenosylmethionine binding site [chemical binding]; other site 660470001904 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 660470001905 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 660470001906 homodimer interface [polypeptide binding]; other site 660470001907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470001908 catalytic residue [active] 660470001909 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 660470001910 NusB family; Region: NusB; pfam01029 660470001911 putative RNA binding site [nucleotide binding]; other site 660470001912 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14469 660470001913 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 660470001914 FeS/SAM binding site; other site 660470001915 GTPase RsgA; Reviewed; Region: PRK00098 660470001916 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 660470001917 RNA binding site [nucleotide binding]; other site 660470001918 homodimer interface [polypeptide binding]; other site 660470001919 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 660470001920 GTPase/Zn-binding domain interface [polypeptide binding]; other site 660470001921 GTP/Mg2+ binding site [chemical binding]; other site 660470001922 G4 box; other site 660470001923 G5 box; other site 660470001924 G1 box; other site 660470001925 Switch I region; other site 660470001926 G2 box; other site 660470001927 G3 box; other site 660470001928 Switch II region; other site 660470001929 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 660470001930 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 660470001931 substrate binding site [chemical binding]; other site 660470001932 hexamer interface [polypeptide binding]; other site 660470001933 metal binding site [ion binding]; metal-binding site 660470001934 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 660470001935 active site 660470001936 dimerization interface [polypeptide binding]; other site 660470001937 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 660470001938 FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]; Region: Tig; COG0544 660470001939 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 660470001940 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 660470001941 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 660470001942 hypothetical protein; Validated; Region: PRK00110 660470001943 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 660470001944 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 660470001945 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 660470001946 RNA binding surface [nucleotide binding]; other site 660470001947 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 660470001948 active site 660470001949 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 660470001950 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 660470001951 catalytic core [active] 660470001952 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 660470001953 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 660470001954 aspartate aminotransferase; Provisional; Region: PRK05764 660470001955 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 660470001956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470001957 homodimer interface [polypeptide binding]; other site 660470001958 catalytic residue [active] 660470001959 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 660470001960 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 660470001961 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 660470001962 Bacitracin resistance protein BacA; Region: BacA; pfam02673 660470001963 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 660470001964 glycogen synthase; Provisional; Region: glgA; PRK00654 660470001965 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 660470001966 ADP-binding pocket [chemical binding]; other site 660470001967 homodimer interface [polypeptide binding]; other site 660470001968 ADP-glucose phosphorylase; Region: PLN02643 660470001969 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 660470001970 nucleotide binding site/active site [active] 660470001971 HIT family signature motif; other site 660470001972 catalytic residue [active] 660470001973 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 660470001974 hypothetical protein; Reviewed; Region: PRK12497 660470001975 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 660470001976 active site 660470001977 substrate binding site [chemical binding]; other site 660470001978 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 660470001979 metal binding site [ion binding]; metal-binding site 660470001980 tRNA pseudouridine synthase ACD; Provisional; Region: PRK14586 660470001981 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 660470001982 dimerization interface 3.5A [polypeptide binding]; other site 660470001983 active site 660470001984 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 660470001985 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 660470001986 nucleotide binding region [chemical binding]; other site 660470001987 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 660470001988 ATP-binding site [chemical binding]; other site 660470001989 peptide chain release factor 2; Validated; Region: prfB; PRK00578 660470001990 This domain is found in peptide chain release factors; Region: PCRF; smart00937 660470001991 RF-1 domain; Region: RF-1; pfam00472 660470001992 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 660470001993 MraW methylase family; Region: Methyltransf_5; cl17771 660470001994 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 660470001995 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 660470001996 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 660470001997 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 660470001998 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 660470001999 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 660470002000 S17 interaction site [polypeptide binding]; other site 660470002001 S8 interaction site; other site 660470002002 16S rRNA interaction site [nucleotide binding]; other site 660470002003 streptomycin interaction site [chemical binding]; other site 660470002004 23S rRNA interaction site [nucleotide binding]; other site 660470002005 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 660470002006 30S ribosomal protein S7; Validated; Region: PRK05302 660470002007 elongation factor G; Reviewed; Region: PRK00007 660470002008 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 660470002009 G1 box; other site 660470002010 putative GEF interaction site [polypeptide binding]; other site 660470002011 GTP/Mg2+ binding site [chemical binding]; other site 660470002012 Switch I region; other site 660470002013 G2 box; other site 660470002014 G3 box; other site 660470002015 Switch II region; other site 660470002016 G4 box; other site 660470002017 G5 box; other site 660470002018 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 660470002019 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 660470002020 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 660470002021 elongation factor Tu; Reviewed; Region: PRK00049 660470002022 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 660470002023 G1 box; other site 660470002024 GEF interaction site [polypeptide binding]; other site 660470002025 GTP/Mg2+ binding site [chemical binding]; other site 660470002026 Switch I region; other site 660470002027 G2 box; other site 660470002028 G3 box; other site 660470002029 Switch II region; other site 660470002030 G4 box; other site 660470002031 G5 box; other site 660470002032 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 660470002033 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 660470002034 Antibiotic Binding Site [chemical binding]; other site 660470002035 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 660470002036 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 660470002037 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 660470002038 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 660470002039 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 660470002040 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 660470002041 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 660470002042 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 660470002043 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 660470002044 putative translocon binding site; other site 660470002045 protein-rRNA interface [nucleotide binding]; other site 660470002046 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 660470002047 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 660470002048 G-X-X-G motif; other site 660470002049 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 660470002050 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 660470002051 23S rRNA interface [nucleotide binding]; other site 660470002052 5S rRNA interface [nucleotide binding]; other site 660470002053 putative antibiotic binding site [chemical binding]; other site 660470002054 L25 interface [polypeptide binding]; other site 660470002055 L27 interface [polypeptide binding]; other site 660470002056 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 660470002057 putative translocon interaction site; other site 660470002058 23S rRNA interface [nucleotide binding]; other site 660470002059 signal recognition particle (SRP54) interaction site; other site 660470002060 L23 interface [polypeptide binding]; other site 660470002061 trigger factor interaction site; other site 660470002062 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 660470002063 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 660470002064 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 660470002065 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 660470002066 RNA binding site [nucleotide binding]; other site 660470002067 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 660470002068 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 660470002069 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 660470002070 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 660470002071 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 660470002072 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 660470002073 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 660470002074 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 660470002075 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 660470002076 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 660470002077 5S rRNA interface [nucleotide binding]; other site 660470002078 L27 interface [polypeptide binding]; other site 660470002079 23S rRNA interface [nucleotide binding]; other site 660470002080 L5 interface [polypeptide binding]; other site 660470002081 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 660470002082 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 660470002083 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 660470002084 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 660470002085 23S rRNA binding site [nucleotide binding]; other site 660470002086 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 660470002087 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 660470002088 SecY translocase; Region: SecY; pfam00344 660470002089 adenylate kinase; Reviewed; Region: adk; PRK00279 660470002090 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 660470002091 AMP-binding site [chemical binding]; other site 660470002092 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 660470002093 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 660470002094 active site 660470002095 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 660470002096 rRNA binding site [nucleotide binding]; other site 660470002097 predicted 30S ribosome binding site; other site 660470002098 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 660470002099 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 660470002100 30S ribosomal protein S13; Region: bact_S13; TIGR03631 660470002101 30S ribosomal protein S11; Validated; Region: PRK05309 660470002102 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 660470002103 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 660470002104 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 660470002105 RNA binding surface [nucleotide binding]; other site 660470002106 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 660470002107 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 660470002108 alphaNTD homodimer interface [polypeptide binding]; other site 660470002109 alphaNTD - beta interaction site [polypeptide binding]; other site 660470002110 alphaNTD - beta' interaction site [polypeptide binding]; other site 660470002111 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 660470002112 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 660470002113 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 660470002114 active site 660470002115 intersubunit interactions; other site 660470002116 catalytic residue [active] 660470002117 transcription termination factor Rho; Provisional; Region: rho; PRK09376 660470002118 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 660470002119 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 660470002120 RNA binding site [nucleotide binding]; other site 660470002121 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 660470002122 multimer interface [polypeptide binding]; other site 660470002123 Walker A motif; other site 660470002124 ATP binding site [chemical binding]; other site 660470002125 Walker B motif; other site 660470002126 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470002127 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470002128 nucleotide binding site [chemical binding]; other site 660470002129 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 660470002130 Active_site [active] 660470002131 DNA polymerase III subunit beta; Validated; Region: PRK05643 660470002132 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 660470002133 putative DNA binding surface [nucleotide binding]; other site 660470002134 dimer interface [polypeptide binding]; other site 660470002135 beta-clamp/clamp loader binding surface; other site 660470002136 beta-clamp/translesion DNA polymerase binding surface; other site 660470002137 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 660470002138 homotrimer interaction site [polypeptide binding]; other site 660470002139 zinc binding site [ion binding]; other site 660470002140 CDP-binding sites; other site 660470002141 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 660470002142 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 660470002143 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 660470002144 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 660470002145 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 660470002146 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 660470002147 putative ligand binding pocket/active site [active] 660470002148 putative metal binding site [ion binding]; other site 660470002149 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 660470002150 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 660470002151 MutS domain III; Region: MutS_III; pfam05192 660470002152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470002153 Walker A/P-loop; other site 660470002154 ATP binding site [chemical binding]; other site 660470002155 Q-loop/lid; other site 660470002156 ABC transporter signature motif; other site 660470002157 Walker B; other site 660470002158 D-loop; other site 660470002159 H-loop/switch region; other site 660470002160 Smr domain; Region: Smr; pfam01713 660470002161 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 660470002162 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 660470002163 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 660470002164 nucleotide binding pocket [chemical binding]; other site 660470002165 K-X-D-G motif; other site 660470002166 catalytic site [active] 660470002167 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 660470002168 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 660470002169 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 660470002170 Dimer interface [polypeptide binding]; other site 660470002171 BRCT sequence motif; other site 660470002172 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 660470002173 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 660470002174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470002175 catalytic residue [active] 660470002176 hypothetical protein; Provisional; Region: PRK11820 660470002177 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 660470002178 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 660470002179 hypothetical protein; Provisional; Region: PRK04323 660470002180 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 660470002181 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 660470002182 catalytic site [active] 660470002183 G-X2-G-X-G-K; other site 660470002184 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 660470002185 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 660470002186 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 660470002187 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 660470002188 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 660470002189 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 660470002190 putative homodimer interface [polypeptide binding]; other site 660470002191 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 660470002192 heterodimer interface [polypeptide binding]; other site 660470002193 homodimer interface [polypeptide binding]; other site 660470002194 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 660470002195 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 660470002196 23S rRNA interface [nucleotide binding]; other site 660470002197 L7/L12 interface [polypeptide binding]; other site 660470002198 putative thiostrepton binding site; other site 660470002199 L25 interface [polypeptide binding]; other site 660470002200 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 660470002201 mRNA/rRNA interface [nucleotide binding]; other site 660470002202 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 660470002203 23S rRNA interface [nucleotide binding]; other site 660470002204 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 660470002205 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 660470002206 core dimer interface [polypeptide binding]; other site 660470002207 peripheral dimer interface [polypeptide binding]; other site 660470002208 L10 interface [polypeptide binding]; other site 660470002209 L11 interface [polypeptide binding]; other site 660470002210 putative EF-Tu interaction site [polypeptide binding]; other site 660470002211 putative EF-G interaction site [polypeptide binding]; other site 660470002212 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 660470002213 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 660470002214 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 660470002215 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 660470002216 RPB11 interaction site [polypeptide binding]; other site 660470002217 RPB12 interaction site [polypeptide binding]; other site 660470002218 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 660470002219 RPB10 interaction site [polypeptide binding]; other site 660470002220 RPB1 interaction site [polypeptide binding]; other site 660470002221 RPB11 interaction site [polypeptide binding]; other site 660470002222 RPB3 interaction site [polypeptide binding]; other site 660470002223 RPB12 interaction site [polypeptide binding]; other site 660470002224 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 660470002225 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 660470002226 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 660470002227 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 660470002228 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 660470002229 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 660470002230 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 660470002231 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 660470002232 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 660470002233 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 660470002234 DNA binding site [nucleotide binding] 660470002235 clamp; other site 660470002236 Rpb1 - Rpb2 interaction site [polypeptide binding]; other site 660470002237 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 660470002238 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 660470002239 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470002240 Walker A/P-loop; other site 660470002241 ATP binding site [chemical binding]; other site 660470002242 Q-loop/lid; other site 660470002243 ABC transporter signature motif; other site 660470002244 Walker B; other site 660470002245 D-loop; other site 660470002246 H-loop/switch region; other site 660470002247 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470002248 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470002249 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470002250 TM-ABC transporter signature motif; other site 660470002251 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470002252 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470002253 TM-ABC transporter signature motif; other site 660470002254 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 660470002255 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 660470002256 active site 660470002257 Zn binding site [ion binding]; other site 660470002258 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 660470002259 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 660470002260 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 660470002261 P loop nucleotide binding; other site 660470002262 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 660470002263 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 660470002264 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 660470002265 switch II; other site 660470002266 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 660470002267 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 660470002268 switch II; other site 660470002269 Protein of unknown function (DUF342); Region: DUF342; pfam03961 660470002270 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 660470002271 S-adenosylmethionine binding site [chemical binding]; other site 660470002272 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 660470002273 dimer interface [polypeptide binding]; other site 660470002274 conserved gate region; other site 660470002275 ABC-ATPase subunit interface; other site 660470002276 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470002277 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 660470002278 dimer interface [polypeptide binding]; other site 660470002279 conserved gate region; other site 660470002280 putative PBP binding loops; other site 660470002281 ABC-ATPase subunit interface; other site 660470002282 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470002283 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 660470002284 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 660470002285 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 660470002286 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 660470002287 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 660470002288 FeS/SAM binding site; other site 660470002289 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 660470002290 ATP cone domain; Region: ATP-cone; pfam03477 660470002291 Class III ribonucleotide reductase; Region: RNR_III; cd01675 660470002292 effector binding site; other site 660470002293 active site 660470002294 Zn binding site [ion binding]; other site 660470002295 glycine loop; other site 660470002296 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 660470002297 active site 660470002298 catalytic site [active] 660470002299 substrate binding site [chemical binding]; other site 660470002300 Uncharacterized conserved protein [Function unknown]; Region: COG2006 660470002301 Domain of unknown function (DUF362); Region: DUF362; pfam04015 660470002302 4Fe-4S binding domain; Region: Fer4_6; pfam12837 660470002303 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 660470002304 4Fe-4S binding domain; Region: Fer4; pfam00037 660470002305 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 660470002306 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 660470002307 N- and C-terminal domain interface [polypeptide binding]; other site 660470002308 active site 660470002309 MgATP binding site [chemical binding]; other site 660470002310 catalytic site [active] 660470002311 metal binding site [ion binding]; metal-binding site 660470002312 glycerol binding site [chemical binding]; other site 660470002313 homotetramer interface [polypeptide binding]; other site 660470002314 homodimer interface [polypeptide binding]; other site 660470002315 FBP binding site [chemical binding]; other site 660470002316 protein IIAGlc interface [polypeptide binding]; other site 660470002317 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 660470002318 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 660470002319 Found in ATP-dependent protease La (LON); Region: LON; smart00464 660470002320 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 660470002321 Walker A motif; other site 660470002322 ATP binding site [chemical binding]; other site 660470002323 Walker B motif; other site 660470002324 arginine finger; other site 660470002325 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 660470002326 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 660470002327 G1 box; other site 660470002328 GTP/Mg2+ binding site [chemical binding]; other site 660470002329 Switch I region; other site 660470002330 G2 box; other site 660470002331 G3 box; other site 660470002332 Switch II region; other site 660470002333 G4 box; other site 660470002334 G5 box; other site 660470002335 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 660470002336 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 660470002337 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 660470002338 beta-galactosidase; Region: BGL; TIGR03356 660470002339 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470002340 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 660470002341 substrate binding site [chemical binding]; other site 660470002342 ATP binding site [chemical binding]; other site 660470002343 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 660470002344 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 660470002345 active site 660470002346 DNA binding site [nucleotide binding] 660470002347 Int/Topo IB signature motif; other site 660470002348 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 660470002349 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 660470002350 active site 660470002351 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 660470002352 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 660470002353 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 660470002354 active site 660470002355 homodimer interface [polypeptide binding]; other site 660470002356 integral membrane protein MviN; Region: mviN; TIGR01695 660470002357 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 660470002358 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 660470002359 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 660470002360 active site 660470002361 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 660470002362 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 660470002363 active site 660470002364 catalytic site [active] 660470002365 substrate binding site [chemical binding]; other site 660470002366 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 660470002367 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 660470002368 putative active site [active] 660470002369 PhoH-like protein; Region: PhoH; pfam02562 660470002370 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 660470002371 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 660470002372 active site 660470002373 motif I; other site 660470002374 motif II; other site 660470002375 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 660470002376 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 660470002377 active site 660470002378 motif I; other site 660470002379 motif II; other site 660470002380 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 660470002381 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 660470002382 GTP/Mg2+ binding site [chemical binding]; other site 660470002383 G4 box; other site 660470002384 G5 box; other site 660470002385 G1 box; other site 660470002386 Switch I region; other site 660470002387 G2 box; other site 660470002388 G3 box; other site 660470002389 Switch II region; other site 660470002390 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 660470002391 Propanediol utilisation protein PduL; Region: PduL; pfam06130 660470002392 Propanediol utilisation protein PduL; Region: PduL; pfam06130 660470002393 Protein of unknown function DUF72; Region: DUF72; pfam01904 660470002394 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 660470002395 putative homodimer interface [polypeptide binding]; other site 660470002396 putative active site pocket [active] 660470002397 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 660470002398 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 660470002399 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 660470002400 RNA binding site [nucleotide binding]; other site 660470002401 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 660470002402 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 660470002403 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 660470002404 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 660470002405 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 660470002406 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 660470002407 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 660470002408 active site 660470002409 homotetramer interface [polypeptide binding]; other site 660470002410 homodimer interface [polypeptide binding]; other site 660470002411 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]; Region: COG1031 660470002412 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 660470002413 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 660470002414 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 660470002415 Walker A motif; other site 660470002416 ATP binding site [chemical binding]; other site 660470002417 Walker B motif; other site 660470002418 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 660470002419 UGMP family protein; Validated; Region: PRK09604 660470002420 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 660470002421 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 660470002422 Cupin domain; Region: Cupin_2; pfam07883 660470002423 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 660470002424 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 660470002425 G-X-X-G motif; other site 660470002426 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 660470002427 RxxxH motif; other site 660470002428 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 660470002429 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 660470002430 Haemolytic domain; Region: Haemolytic; pfam01809 660470002431 Ribonuclease P; Region: Ribonuclease_P; pfam00825 660470002432 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 660470002433 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 660470002434 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470002435 Walker A/P-loop; other site 660470002436 ATP binding site [chemical binding]; other site 660470002437 Q-loop/lid; other site 660470002438 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 660470002439 ABC transporter signature motif; other site 660470002440 Walker B; other site 660470002441 D-loop; other site 660470002442 H-loop/switch region; other site 660470002443 HEAT repeats; Region: HEAT_2; pfam13646 660470002444 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 660470002445 FAD binding domain; Region: FAD_binding_4; pfam01565 660470002446 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 660470002447 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 660470002448 HflK protein; Region: hflK; TIGR01933 660470002449 HflC protein; Region: hflC; TIGR01932 660470002450 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 660470002451 Uncharacterized conserved protein [Function unknown]; Region: COG1739 660470002452 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 660470002453 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 660470002454 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 660470002455 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 660470002456 rod shape-determining protein MreB; Provisional; Region: PRK13930 660470002457 MreB and similar proteins; Region: MreB_like; cd10225 660470002458 nucleotide binding site [chemical binding]; other site 660470002459 Mg binding site [ion binding]; other site 660470002460 putative protofilament interaction site [polypeptide binding]; other site 660470002461 RodZ interaction site [polypeptide binding]; other site 660470002462 spermidine synthase; Provisional; Region: PRK00811 660470002463 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 660470002464 S-adenosylmethionine binding site [chemical binding]; other site 660470002465 GTP-binding protein LepA; Provisional; Region: PRK05433 660470002466 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 660470002467 G1 box; other site 660470002468 putative GEF interaction site [polypeptide binding]; other site 660470002469 GTP/Mg2+ binding site [chemical binding]; other site 660470002470 Switch I region; other site 660470002471 G2 box; other site 660470002472 G3 box; other site 660470002473 Switch II region; other site 660470002474 G4 box; other site 660470002475 G5 box; other site 660470002476 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 660470002477 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 660470002478 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 660470002479 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 660470002480 AP endonuclease family 2; Region: AP2Ec; smart00518 660470002481 AP (apurinic/apyrimidinic) site pocket; other site 660470002482 DNA interaction; other site 660470002483 Metal-binding active site; metal-binding site 660470002484 CTP synthetase; Validated; Region: pyrG; PRK05380 660470002485 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 660470002486 active site 660470002487 UTP binding site [chemical binding]; other site 660470002488 Catalytic site [active] 660470002489 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 660470002490 active site 660470002491 putative oxyanion hole; other site 660470002492 catalytic triad [active] 660470002493 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 660470002494 dihydropteroate synthase; Region: DHPS; TIGR01496 660470002495 substrate binding pocket [chemical binding]; other site 660470002496 dimer interface [polypeptide binding]; other site 660470002497 inhibitor binding site; inhibition site 660470002498 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 660470002499 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 660470002500 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 660470002501 dimer interface [polypeptide binding]; other site 660470002502 conserved gate region; other site 660470002503 putative PBP binding loops; other site 660470002504 ABC-ATPase subunit interface; other site 660470002505 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470002506 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 660470002507 dimer interface [polypeptide binding]; other site 660470002508 conserved gate region; other site 660470002509 putative PBP binding loops; other site 660470002510 ABC-ATPase subunit interface; other site 660470002511 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 660470002512 S-adenosylmethionine binding site [chemical binding]; other site 660470002513 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 660470002514 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 660470002515 bacterial Hfq-like; Region: Hfq; cd01716 660470002516 hexamer interface [polypeptide binding]; other site 660470002517 Sm1 motif; other site 660470002518 RNA binding site [nucleotide binding]; other site 660470002519 Sm2 motif; other site 660470002520 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 660470002521 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 660470002522 HflX GTPase family; Region: HflX; cd01878 660470002523 G1 box; other site 660470002524 GTP/Mg2+ binding site [chemical binding]; other site 660470002525 Switch I region; other site 660470002526 G2 box; other site 660470002527 G3 box; other site 660470002528 Switch II region; other site 660470002529 G4 box; other site 660470002530 G5 box; other site 660470002531 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 660470002532 S-adenosylmethionine synthetase; Validated; Region: PRK05250 660470002533 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 660470002534 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 660470002535 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 660470002536 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 660470002537 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 660470002538 Walker A/P-loop; other site 660470002539 ATP binding site [chemical binding]; other site 660470002540 Q-loop/lid; other site 660470002541 ABC transporter signature motif; other site 660470002542 Walker B; other site 660470002543 D-loop; other site 660470002544 H-loop/switch region; other site 660470002545 TOBE domain; Region: TOBE; pfam03459 660470002546 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 660470002547 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 660470002548 FMN-binding domain; Region: FMN_bind; cl01081 660470002549 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 660470002550 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 660470002551 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 660470002552 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 660470002553 catalytic loop [active] 660470002554 iron binding site [ion binding]; other site 660470002555 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 660470002556 FAD binding pocket [chemical binding]; other site 660470002557 conserved FAD binding motif [chemical binding]; other site 660470002558 phosphate binding motif [ion binding]; other site 660470002559 beta-alpha-beta structure motif; other site 660470002560 NAD binding pocket [chemical binding]; other site 660470002561 Uncharacterized conserved protein [Function unknown]; Region: COG1683 660470002562 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470002563 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 660470002564 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470002565 Peptidase family M23; Region: Peptidase_M23; pfam01551 660470002566 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 660470002567 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 660470002568 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 660470002569 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 660470002570 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 660470002571 TPP-binding site [chemical binding]; other site 660470002572 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 660470002573 catalytic motif [active] 660470002574 Zn binding site [ion binding]; other site 660470002575 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 660470002576 diiron binding motif [ion binding]; other site 660470002577 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 660470002578 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 660470002579 FeS/SAM binding site; other site 660470002580 HemN C-terminal domain; Region: HemN_C; pfam06969 660470002581 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 660470002582 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 660470002583 GatB domain; Region: GatB_Yqey; smart00845 660470002584 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 660470002585 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 660470002586 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 660470002587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470002588 active site 660470002589 phosphorylation site [posttranslational modification] 660470002590 intermolecular recognition site; other site 660470002591 dimerization interface [polypeptide binding]; other site 660470002592 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 660470002593 PAS domain S-box; Region: sensory_box; TIGR00229 660470002594 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470002595 putative active site [active] 660470002596 heme pocket [chemical binding]; other site 660470002597 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 660470002598 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 660470002599 putative active site [active] 660470002600 heme pocket [chemical binding]; other site 660470002601 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 660470002602 dimer interface [polypeptide binding]; other site 660470002603 phosphorylation site [posttranslational modification] 660470002604 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 660470002605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470002606 ATP binding site [chemical binding]; other site 660470002607 Mg2+ binding site [ion binding]; other site 660470002608 G-X-G motif; other site 660470002609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470002610 active site 660470002611 phosphorylation site [posttranslational modification] 660470002612 intermolecular recognition site; other site 660470002613 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470002614 PAS fold; Region: PAS_3; pfam08447 660470002615 putative active site [active] 660470002616 heme pocket [chemical binding]; other site 660470002617 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470002618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470002619 Zn2+ binding site [ion binding]; other site 660470002620 Mg2+ binding site [ion binding]; other site 660470002621 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 660470002622 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 660470002623 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470002624 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 660470002625 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 660470002626 active site 660470002627 Riboflavin kinase; Region: Flavokinase; pfam01687 660470002628 tRNA pseudouridine synthase B; Provisional; Region: PRK14124 660470002629 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 660470002630 RNA binding site [nucleotide binding]; other site 660470002631 active site 660470002632 PUA domain; Region: PUA; cl00607 660470002633 Ribosome-binding factor A; Region: RBFA; pfam02033 660470002634 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470002635 MULE transposase domain; Region: MULE; pfam10551 660470002636 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470002637 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470002638 Uncharacterized conserved protein [Function unknown]; Region: COG5276 660470002639 LVIVD repeat; Region: LVIVD; pfam08309 660470002640 Uncharacterized conserved protein [Function unknown]; Region: COG5276 660470002641 LVIVD repeat; Region: LVIVD; pfam08309 660470002642 Uncharacterized conserved protein [Function unknown]; Region: COG5276 660470002643 Uncharacterized conserved protein [Function unknown]; Region: COG5276 660470002644 Uncharacterized conserved protein [Function unknown]; Region: COG5276 660470002645 LVIVD repeat; Region: LVIVD; pfam08309 660470002646 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 660470002647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470002648 DNA-binding site [nucleotide binding]; DNA binding site 660470002649 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 660470002650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470002651 homodimer interface [polypeptide binding]; other site 660470002652 catalytic residue [active] 660470002653 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470002654 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_4; cd08500 660470002655 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470002656 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_4; cd08500 660470002657 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 660470002658 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 660470002659 active site 660470002660 metal binding site [ion binding]; metal-binding site 660470002661 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 660470002662 putative substrate translocation pore; other site 660470002663 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470002664 GTPase Era; Reviewed; Region: era; PRK00089 660470002665 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 660470002666 G1 box; other site 660470002667 GTP/Mg2+ binding site [chemical binding]; other site 660470002668 Switch I region; other site 660470002669 G2 box; other site 660470002670 Switch II region; other site 660470002671 G3 box; other site 660470002672 G4 box; other site 660470002673 G5 box; other site 660470002674 KH domain; Region: KH_2; pfam07650 660470002675 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 660470002676 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 660470002677 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 660470002678 motif 1; other site 660470002679 dimer interface [polypeptide binding]; other site 660470002680 active site 660470002681 motif 2; other site 660470002682 motif 3; other site 660470002683 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 660470002684 DAK2 domain; Region: Dak2; pfam02734 660470002685 Asp23 family; Region: Asp23; pfam03780 660470002686 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 660470002687 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 660470002688 TPP-binding site; other site 660470002689 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 660470002690 PYR/PP interface [polypeptide binding]; other site 660470002691 dimer interface [polypeptide binding]; other site 660470002692 TPP binding site [chemical binding]; other site 660470002693 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 660470002694 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 660470002695 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 660470002696 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 660470002697 homodimer interface [polypeptide binding]; other site 660470002698 NADP binding site [chemical binding]; other site 660470002699 substrate binding site [chemical binding]; other site 660470002700 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 660470002701 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 660470002702 Potassium binding sites [ion binding]; other site 660470002703 Cesium cation binding sites [ion binding]; other site 660470002704 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 660470002705 putative RNA binding site [nucleotide binding]; other site 660470002706 Asp23 family; Region: Asp23; pfam03780 660470002707 elongation factor P; Validated; Region: PRK00529 660470002708 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 660470002709 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 660470002710 RNA binding site [nucleotide binding]; other site 660470002711 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 660470002712 RNA binding site [nucleotide binding]; other site 660470002713 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 660470002714 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 660470002715 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 660470002716 active site 660470002717 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 660470002718 MutS domain I; Region: MutS_I; pfam01624 660470002719 MutS domain II; Region: MutS_II; pfam05188 660470002720 MutS domain III; Region: MutS_III; pfam05192 660470002721 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 660470002722 Walker A/P-loop; other site 660470002723 ATP binding site [chemical binding]; other site 660470002724 Q-loop/lid; other site 660470002725 ABC transporter signature motif; other site 660470002726 Walker B; other site 660470002727 D-loop; other site 660470002728 H-loop/switch region; other site 660470002729 Clp protease; Region: CLP_protease; pfam00574 660470002730 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 660470002731 oligomer interface [polypeptide binding]; other site 660470002732 active site residues [active] 660470002733 Domain of unknown function (DUF370); Region: DUF370; cl00898 660470002734 GTPase CgtA; Reviewed; Region: obgE; PRK12297 660470002735 GTP1/OBG; Region: GTP1_OBG; pfam01018 660470002736 Obg GTPase; Region: Obg; cd01898 660470002737 G1 box; other site 660470002738 GTP/Mg2+ binding site [chemical binding]; other site 660470002739 Switch I region; other site 660470002740 G2 box; other site 660470002741 G3 box; other site 660470002742 Switch II region; other site 660470002743 G4 box; other site 660470002744 G5 box; other site 660470002745 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 660470002746 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 660470002747 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 660470002748 active site 660470002749 (T/H)XGH motif; other site 660470002750 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 660470002751 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 660470002752 FMN binding site [chemical binding]; other site 660470002753 active site 660470002754 catalytic residues [active] 660470002755 substrate binding site [chemical binding]; other site 660470002756 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 660470002757 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 660470002758 Walker A/P-loop; other site 660470002759 ATP binding site [chemical binding]; other site 660470002760 Q-loop/lid; other site 660470002761 ABC transporter signature motif; other site 660470002762 Walker B; other site 660470002763 D-loop; other site 660470002764 H-loop/switch region; other site 660470002765 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 660470002766 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 660470002767 Walker A/P-loop; other site 660470002768 ATP binding site [chemical binding]; other site 660470002769 Q-loop/lid; other site 660470002770 ABC transporter signature motif; other site 660470002771 Walker B; other site 660470002772 D-loop; other site 660470002773 H-loop/switch region; other site 660470002774 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 660470002775 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 660470002776 TM-ABC transporter signature motif; other site 660470002777 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470002778 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 660470002779 TM-ABC transporter signature motif; other site 660470002780 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 660470002781 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 660470002782 putative ligand binding site [chemical binding]; other site 660470002783 Threonine dehydrogenase; Region: TDH; cd05281 660470002784 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 660470002785 structural Zn binding site [ion binding]; other site 660470002786 catalytic Zn binding site [ion binding]; other site 660470002787 tetramer interface [polypeptide binding]; other site 660470002788 NADP binding site [chemical binding]; other site 660470002789 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 660470002790 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 660470002791 substrate-cofactor binding pocket; other site 660470002792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470002793 catalytic residue [active] 660470002794 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 660470002795 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 660470002796 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 660470002797 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470002798 Coenzyme A binding pocket [chemical binding]; other site 660470002799 GMP synthase subunit A; Validated; Region: PRK00758 660470002800 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 660470002801 conserved cys residue [active] 660470002802 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 660470002803 active sites [active] 660470002804 tetramer interface [polypeptide binding]; other site 660470002805 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 660470002806 dimer interface [polypeptide binding]; other site 660470002807 conserved gate region; other site 660470002808 putative PBP binding loops; other site 660470002809 ABC-ATPase subunit interface; other site 660470002810 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 660470002811 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 660470002812 Walker A/P-loop; other site 660470002813 ATP binding site [chemical binding]; other site 660470002814 Q-loop/lid; other site 660470002815 ABC transporter signature motif; other site 660470002816 Walker B; other site 660470002817 D-loop; other site 660470002818 H-loop/switch region; other site 660470002819 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 660470002820 dimer interface [polypeptide binding]; other site 660470002821 conserved gate region; other site 660470002822 putative PBP binding loops; other site 660470002823 ABC-ATPase subunit interface; other site 660470002824 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 660470002825 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 660470002826 substrate binding pocket [chemical binding]; other site 660470002827 membrane-bound complex binding site; other site 660470002828 hinge residues; other site 660470002829 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 660470002830 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 660470002831 Ligand Binding Site [chemical binding]; other site 660470002832 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 660470002833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470002834 Coenzyme A binding pocket [chemical binding]; other site 660470002835 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 660470002836 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 660470002837 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_6; cd12165 660470002838 putative ligand binding site [chemical binding]; other site 660470002839 NAD binding site [chemical binding]; other site 660470002840 dimer interface [polypeptide binding]; other site 660470002841 putative catalytic site [active] 660470002842 CHASE domain; Region: CHASE; pfam03924 660470002843 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470002844 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470002845 Zn2+ binding site [ion binding]; other site 660470002846 Mg2+ binding site [ion binding]; other site 660470002847 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 660470002848 Uncharacterized conserved protein [Function unknown]; Region: COG2006 660470002849 Domain of unknown function (DUF362); Region: DUF362; pfam04015 660470002850 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 660470002851 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 660470002852 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470002853 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 660470002854 dimer interface [polypeptide binding]; other site 660470002855 conserved gate region; other site 660470002856 putative PBP binding loops; other site 660470002857 ABC-ATPase subunit interface; other site 660470002858 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470002859 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 660470002860 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 660470002861 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 660470002862 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 660470002863 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 660470002864 catalytic loop [active] 660470002865 iron binding site [ion binding]; other site 660470002866 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 660470002867 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 660470002868 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 660470002869 xanthine dehydrogenase C subunit; Region: pucC; TIGR03199 660470002870 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 660470002871 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 660470002872 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 660470002873 Ligand binding site; other site 660470002874 metal-binding site 660470002875 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 660470002876 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 660470002877 threonine synthase; Validated; Region: PRK06260 660470002878 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 660470002879 homodimer interface [polypeptide binding]; other site 660470002880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470002881 catalytic residue [active] 660470002882 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 660470002883 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 660470002884 phosphate binding site [ion binding]; other site 660470002885 4Fe-4S binding domain; Region: Fer4; pfam00037 660470002886 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 660470002887 4Fe-4S binding domain; Region: Fer4; pfam00037 660470002888 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 660470002889 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 660470002890 active site 660470002891 phenylhydantoinase; Validated; Region: PRK08323 660470002892 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 660470002893 active site 660470002894 probable carbamoyltransferase YgeW; Region: ygeW; TIGR03316 660470002895 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 660470002896 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 660470002897 peptidase; Reviewed; Region: PRK13004 660470002898 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 660470002899 putative metal binding site [ion binding]; other site 660470002900 putative dimer interface [polypeptide binding]; other site 660470002901 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 660470002902 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 660470002903 Walker A/P-loop; other site 660470002904 ATP binding site [chemical binding]; other site 660470002905 Q-loop/lid; other site 660470002906 ABC transporter signature motif; other site 660470002907 Walker B; other site 660470002908 D-loop; other site 660470002909 H-loop/switch region; other site 660470002910 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 660470002911 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 660470002912 active site 660470002913 catalytic site [active] 660470002914 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 660470002915 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 660470002916 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470002917 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 660470002918 conserved gate region; other site 660470002919 dimer interface [polypeptide binding]; other site 660470002920 putative PBP binding loops; other site 660470002921 ABC-ATPase subunit interface; other site 660470002922 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470002923 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 660470002924 dimer interface [polypeptide binding]; other site 660470002925 conserved gate region; other site 660470002926 putative PBP binding loops; other site 660470002927 ABC-ATPase subunit interface; other site 660470002928 FMN-binding domain; Region: FMN_bind; cl01081 660470002929 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 660470002930 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 660470002931 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 660470002932 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 660470002933 dimer interface [polypeptide binding]; other site 660470002934 ssDNA binding site [nucleotide binding]; other site 660470002935 tetramer (dimer of dimers) interface [polypeptide binding]; other site 660470002936 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 660470002937 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 660470002938 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 660470002939 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 660470002940 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 660470002941 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 660470002942 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 660470002943 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 660470002944 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 660470002945 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 660470002946 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 660470002947 catalytic residues [active] 660470002948 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 660470002949 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470002950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470002951 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 660470002952 dimer interface [polypeptide binding]; other site 660470002953 catalytic triad [active] 660470002954 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 660470002955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470002956 Walker A/P-loop; other site 660470002957 ATP binding site [chemical binding]; other site 660470002958 Q-loop/lid; other site 660470002959 ABC transporter signature motif; other site 660470002960 Walker B; other site 660470002961 D-loop; other site 660470002962 H-loop/switch region; other site 660470002963 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 660470002964 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 660470002965 dimer interface [polypeptide binding]; other site 660470002966 conserved gate region; other site 660470002967 putative PBP binding loops; other site 660470002968 ABC-ATPase subunit interface; other site 660470002969 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 660470002970 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 660470002971 substrate binding pocket [chemical binding]; other site 660470002972 membrane-bound complex binding site; other site 660470002973 hinge residues; other site 660470002974 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 660470002975 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 660470002976 Substrate-binding site [chemical binding]; other site 660470002977 Substrate specificity [chemical binding]; other site 660470002978 4Fe-4S binding domain; Region: Fer4_5; pfam12801 660470002979 4Fe-4S binding domain; Region: Fer4_5; pfam12801 660470002980 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 660470002981 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 660470002982 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 660470002983 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 660470002984 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 660470002985 MOFRL family; Region: MOFRL; pfam05161 660470002986 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470002987 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 660470002988 dimer interface [polypeptide binding]; other site 660470002989 conserved gate region; other site 660470002990 putative PBP binding loops; other site 660470002991 ABC-ATPase subunit interface; other site 660470002992 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 660470002993 dimer interface [polypeptide binding]; other site 660470002994 conserved gate region; other site 660470002995 putative PBP binding loops; other site 660470002996 ABC-ATPase subunit interface; other site 660470002997 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470002998 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 660470002999 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 660470003000 Uncharacterized conserved protein [Function unknown]; Region: COG2461 660470003001 Family of unknown function (DUF438); Region: DUF438; pfam04282 660470003002 Hemerythrin-like domain; Region: Hr-like; cd12108 660470003003 Fe binding site [ion binding]; other site 660470003004 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 660470003005 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 660470003006 active site 660470003007 catalytic tetrad [active] 660470003008 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 660470003009 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 660470003010 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 660470003011 Substrate binding site; other site 660470003012 Mg++ binding site; other site 660470003013 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 660470003014 active site 660470003015 substrate binding site [chemical binding]; other site 660470003016 CoA binding site [chemical binding]; other site 660470003017 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 660470003018 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 660470003019 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 660470003020 active site 660470003021 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 660470003022 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 660470003023 5S rRNA interface [nucleotide binding]; other site 660470003024 CTC domain interface [polypeptide binding]; other site 660470003025 L16 interface [polypeptide binding]; other site 660470003026 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 660470003027 putative active site [active] 660470003028 catalytic residue [active] 660470003029 excinuclease ABC subunit B; Provisional; Region: PRK05298 660470003030 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 660470003031 ATP binding site [chemical binding]; other site 660470003032 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 660470003033 nucleotide binding region [chemical binding]; other site 660470003034 ATP-binding site [chemical binding]; other site 660470003035 Ultra-violet resistance protein B; Region: UvrB; pfam12344 660470003036 UvrB/uvrC motif; Region: UVR; pfam02151 660470003037 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 660470003038 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 660470003039 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 660470003040 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 660470003041 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 660470003042 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 660470003043 active site 660470003044 HIGH motif; other site 660470003045 nucleotide binding site [chemical binding]; other site 660470003046 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 660470003047 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 660470003048 active site 660470003049 KMSKS motif; other site 660470003050 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 660470003051 tRNA binding surface [nucleotide binding]; other site 660470003052 anticodon binding site; other site 660470003053 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 660470003054 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 660470003055 DNA binding site [nucleotide binding] 660470003056 active site 660470003057 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 660470003058 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 660470003059 flavoprotein, HI0933 family; Region: TIGR00275 660470003060 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470003061 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 660470003062 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 660470003063 EDD domain protein, DegV family; Region: DegV; TIGR00762 660470003064 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 660470003065 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 660470003066 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 660470003067 active site 660470003068 catalytic tetrad [active] 660470003069 urocanate hydratase; Provisional; Region: PRK05414 660470003070 Uncharacterized conserved protein [Function unknown]; Region: COG1751 660470003071 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 660470003072 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 660470003073 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470003074 B12 binding domain; Region: B12-binding; pfam02310 660470003075 B12 binding site [chemical binding]; other site 660470003076 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 660470003077 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 660470003078 FeS/SAM binding site; other site 660470003079 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 660470003080 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 660470003081 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 660470003082 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 660470003083 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 660470003084 Ion channel; Region: Ion_trans_2; pfam07885 660470003085 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 660470003086 TrkA-N domain; Region: TrkA_N; pfam02254 660470003087 TrkA-C domain; Region: TrkA_C; pfam02080 660470003088 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 660470003089 Part of AAA domain; Region: AAA_19; pfam13245 660470003090 Family description; Region: UvrD_C_2; pfam13538 660470003091 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 660470003092 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 660470003093 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 660470003094 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 660470003095 putative substrate translocation pore; other site 660470003096 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 660470003097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470003098 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470003099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470003100 Walker A/P-loop; other site 660470003101 ATP binding site [chemical binding]; other site 660470003102 Q-loop/lid; other site 660470003103 ABC transporter signature motif; other site 660470003104 Walker B; other site 660470003105 D-loop; other site 660470003106 H-loop/switch region; other site 660470003107 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470003108 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 660470003109 TM-ABC transporter signature motif; other site 660470003110 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 660470003111 zinc binding site [ion binding]; other site 660470003112 putative ligand binding site [chemical binding]; other site 660470003113 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470003114 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470003115 TM-ABC transporter signature motif; other site 660470003116 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470003117 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470003118 TM-ABC transporter signature motif; other site 660470003119 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 660470003120 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470003121 Walker A/P-loop; other site 660470003122 ATP binding site [chemical binding]; other site 660470003123 Q-loop/lid; other site 660470003124 ABC transporter signature motif; other site 660470003125 Walker B; other site 660470003126 D-loop; other site 660470003127 H-loop/switch region; other site 660470003128 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470003129 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 660470003130 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 660470003131 putative ligand binding site [chemical binding]; other site 660470003132 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 660470003133 Ferritin-like domain; Region: Ferritin; pfam00210 660470003134 ferroxidase diiron center [ion binding]; other site 660470003135 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 660470003136 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 660470003137 active site 660470003138 metal binding site [ion binding]; metal-binding site 660470003139 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 660470003140 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470003141 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 660470003142 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 660470003143 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 660470003144 ligand binding site [chemical binding]; other site 660470003145 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470003146 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470003147 Walker A/P-loop; other site 660470003148 ATP binding site [chemical binding]; other site 660470003149 Q-loop/lid; other site 660470003150 ABC transporter signature motif; other site 660470003151 Walker B; other site 660470003152 D-loop; other site 660470003153 H-loop/switch region; other site 660470003154 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470003155 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470003156 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470003157 TM-ABC transporter signature motif; other site 660470003158 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 660470003159 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 660470003160 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470003161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 660470003162 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470003163 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 660470003164 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 660470003165 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 660470003166 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 660470003167 ADP-ribose binding site [chemical binding]; other site 660470003168 recombination factor protein RarA; Reviewed; Region: PRK13342 660470003169 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 660470003170 Walker A motif; other site 660470003171 ATP binding site [chemical binding]; other site 660470003172 Walker B motif; other site 660470003173 arginine finger; other site 660470003174 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 660470003175 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 660470003176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 660470003177 NAD(P) binding site [chemical binding]; other site 660470003178 active site 660470003179 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 660470003180 Fe-S cluster binding site [ion binding]; other site 660470003181 active site 660470003182 Predicted permeases [General function prediction only]; Region: COG0795 660470003183 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 660470003184 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 660470003185 PhoU domain; Region: PhoU; pfam01895 660470003186 PhoU domain; Region: PhoU; pfam01895 660470003187 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 660470003188 ATP-NAD kinase; Region: NAD_kinase; pfam01513 660470003189 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 660470003190 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 660470003191 Walker A motif; other site 660470003192 ATP binding site [chemical binding]; other site 660470003193 Walker B motif; other site 660470003194 arginine finger; other site 660470003195 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 660470003196 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 660470003197 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 660470003198 Dimer interface [polypeptide binding]; other site 660470003199 anticodon binding site; other site 660470003200 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 660470003201 homodimer interface [polypeptide binding]; other site 660470003202 motif 1; other site 660470003203 motif 2; other site 660470003204 active site 660470003205 motif 3; other site 660470003206 S-layer homology domain; Region: SLH; pfam00395 660470003207 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 660470003208 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 660470003209 dimer interface [polypeptide binding]; other site 660470003210 anticodon binding site; other site 660470003211 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 660470003212 homodimer interface [polypeptide binding]; other site 660470003213 motif 1; other site 660470003214 active site 660470003215 motif 2; other site 660470003216 GAD domain; Region: GAD; pfam02938 660470003217 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 660470003218 motif 3; other site 660470003219 cytidylate kinase; Provisional; Region: cmk; PRK00023 660470003220 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 660470003221 CMP-binding site; other site 660470003222 The sites determining sugar specificity; other site 660470003223 LytB protein; Region: LYTB; cl00507 660470003224 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 660470003225 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 660470003226 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 660470003227 RNA binding site [nucleotide binding]; other site 660470003228 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 660470003229 RNA binding site [nucleotide binding]; other site 660470003230 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; cd00164 660470003231 RNA binding site [nucleotide binding]; other site 660470003232 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 660470003233 RNA binding site [nucleotide binding]; other site 660470003234 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 660470003235 RNA binding site [nucleotide binding]; other site 660470003236 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 660470003237 RNA binding site [nucleotide binding]; other site 660470003238 GTP-binding protein Der; Reviewed; Region: PRK00093 660470003239 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 660470003240 G1 box; other site 660470003241 GTP/Mg2+ binding site [chemical binding]; other site 660470003242 Switch I region; other site 660470003243 G2 box; other site 660470003244 Switch II region; other site 660470003245 G3 box; other site 660470003246 G4 box; other site 660470003247 G5 box; other site 660470003248 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 660470003249 G1 box; other site 660470003250 GTP/Mg2+ binding site [chemical binding]; other site 660470003251 Switch I region; other site 660470003252 G2 box; other site 660470003253 G3 box; other site 660470003254 Switch II region; other site 660470003255 G4 box; other site 660470003256 G5 box; other site 660470003257 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 660470003258 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 660470003259 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 660470003260 gamma subunit interface [polypeptide binding]; other site 660470003261 epsilon subunit interface [polypeptide binding]; other site 660470003262 LBP interface [polypeptide binding]; other site 660470003263 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 660470003264 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 660470003265 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 660470003266 alpha subunit interaction interface [polypeptide binding]; other site 660470003267 Walker A motif; other site 660470003268 ATP binding site [chemical binding]; other site 660470003269 Walker B motif; other site 660470003270 inhibitor binding site; inhibition site 660470003271 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 660470003272 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 660470003273 core domain interface [polypeptide binding]; other site 660470003274 delta subunit interface [polypeptide binding]; other site 660470003275 epsilon subunit interface [polypeptide binding]; other site 660470003276 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 660470003277 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 660470003278 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 660470003279 beta subunit interaction interface [polypeptide binding]; other site 660470003280 Walker A motif; other site 660470003281 ATP binding site [chemical binding]; other site 660470003282 Walker B motif; other site 660470003283 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 660470003284 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 660470003285 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 660470003286 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 660470003287 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 660470003288 F0F1 ATP synthase subunit C; Provisional; Region: PRK13471 660470003289 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 660470003290 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 660470003291 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 660470003292 DNA polymerase I; Provisional; Region: PRK05755 660470003293 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 660470003294 active site 660470003295 metal binding site 1 [ion binding]; metal-binding site 660470003296 putative 5' ssDNA interaction site; other site 660470003297 metal binding site 3; metal-binding site 660470003298 metal binding site 2 [ion binding]; metal-binding site 660470003299 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 660470003300 putative DNA binding site [nucleotide binding]; other site 660470003301 putative metal binding site [ion binding]; other site 660470003302 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 660470003303 active site 660470003304 catalytic site [active] 660470003305 substrate binding site [chemical binding]; other site 660470003306 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 660470003307 active site 660470003308 DNA binding site [nucleotide binding] 660470003309 catalytic site [active] 660470003310 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 660470003311 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 660470003312 active site 660470003313 GTP-binding protein YchF; Reviewed; Region: PRK09601 660470003314 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 660470003315 G1 box; other site 660470003316 GTP/Mg2+ binding site [chemical binding]; other site 660470003317 Switch I region; other site 660470003318 G3 box; other site 660470003319 Switch II region; other site 660470003320 G4 box; other site 660470003321 G5 box; other site 660470003322 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 660470003323 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 660470003324 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 660470003325 ligand binding site [chemical binding]; other site 660470003326 flexible hinge region; other site 660470003327 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 660470003328 putative switch regulator; other site 660470003329 non-specific DNA interactions [nucleotide binding]; other site 660470003330 DNA binding site [nucleotide binding] 660470003331 sequence specific DNA binding site [nucleotide binding]; other site 660470003332 putative cAMP binding site [chemical binding]; other site 660470003333 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 660470003334 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 660470003335 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470003336 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470003337 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 660470003338 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 660470003339 dimer interface [polypeptide binding]; other site 660470003340 conserved gate region; other site 660470003341 putative PBP binding loops; other site 660470003342 ABC-ATPase subunit interface; other site 660470003343 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470003344 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 660470003345 dimer interface [polypeptide binding]; other site 660470003346 conserved gate region; other site 660470003347 putative PBP binding loops; other site 660470003348 ABC-ATPase subunit interface; other site 660470003349 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 660470003350 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 660470003351 NlpC/P60 family; Region: NLPC_P60; cl17555 660470003352 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 660470003353 putative active site; other site 660470003354 putative metal binding residues [ion binding]; other site 660470003355 signature motif; other site 660470003356 putative triphosphate binding site [ion binding]; other site 660470003357 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 660470003358 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 660470003359 nucleotide binding site/active site [active] 660470003360 HIT family signature motif; other site 660470003361 catalytic residue [active] 660470003362 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 660470003363 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 660470003364 S-adenosylmethionine binding site [chemical binding]; other site 660470003365 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 660470003366 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 660470003367 Walker A/P-loop; other site 660470003368 ATP binding site [chemical binding]; other site 660470003369 Q-loop/lid; other site 660470003370 ABC transporter signature motif; other site 660470003371 Walker B; other site 660470003372 D-loop; other site 660470003373 H-loop/switch region; other site 660470003374 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 660470003375 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 660470003376 Walker A/P-loop; other site 660470003377 ATP binding site [chemical binding]; other site 660470003378 Q-loop/lid; other site 660470003379 ABC transporter signature motif; other site 660470003380 Walker B; other site 660470003381 D-loop; other site 660470003382 H-loop/switch region; other site 660470003383 Protein of unknown function (DUF554); Region: DUF554; pfam04474 660470003384 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 660470003385 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 660470003386 TPP-binding site [chemical binding]; other site 660470003387 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 660470003388 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 660470003389 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 660470003390 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 660470003391 dimer interface [polypeptide binding]; other site 660470003392 PYR/PP interface [polypeptide binding]; other site 660470003393 TPP binding site [chemical binding]; other site 660470003394 substrate binding site [chemical binding]; other site 660470003395 Rubredoxin [Energy production and conversion]; Region: COG1773 660470003396 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 660470003397 iron binding site [ion binding]; other site 660470003398 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 660470003399 non-heme iron binding site [ion binding]; other site 660470003400 tetramer interface [polypeptide binding]; other site 660470003401 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 660470003402 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 660470003403 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 660470003404 active site 660470003405 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 660470003406 non-specific DNA binding site [nucleotide binding]; other site 660470003407 salt bridge; other site 660470003408 sequence-specific DNA binding site [nucleotide binding]; other site 660470003409 Cupin domain; Region: Cupin_2; pfam07883 660470003410 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 660470003411 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 660470003412 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470003413 Walker A/P-loop; other site 660470003414 ATP binding site [chemical binding]; other site 660470003415 Q-loop/lid; other site 660470003416 ABC transporter signature motif; other site 660470003417 Walker B; other site 660470003418 D-loop; other site 660470003419 H-loop/switch region; other site 660470003420 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 660470003421 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470003422 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470003423 Walker A/P-loop; other site 660470003424 ATP binding site [chemical binding]; other site 660470003425 Q-loop/lid; other site 660470003426 ABC transporter signature motif; other site 660470003427 Walker B; other site 660470003428 D-loop; other site 660470003429 H-loop/switch region; other site 660470003430 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470003431 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 660470003432 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 660470003433 metal binding site [ion binding]; metal-binding site 660470003434 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470003435 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 660470003436 dimer interface [polypeptide binding]; other site 660470003437 conserved gate region; other site 660470003438 putative PBP binding loops; other site 660470003439 ABC-ATPase subunit interface; other site 660470003440 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470003441 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 660470003442 dimer interface [polypeptide binding]; other site 660470003443 conserved gate region; other site 660470003444 putative PBP binding loops; other site 660470003445 ABC-ATPase subunit interface; other site 660470003446 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470003447 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 660470003448 AroM protein; Region: AroM; cl17601 660470003449 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 660470003450 putative substrate translocation pore; other site 660470003451 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470003452 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 660470003453 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 660470003454 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 660470003455 Walker A/P-loop; other site 660470003456 ATP binding site [chemical binding]; other site 660470003457 Q-loop/lid; other site 660470003458 ABC transporter signature motif; other site 660470003459 Walker B; other site 660470003460 D-loop; other site 660470003461 H-loop/switch region; other site 660470003462 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 660470003463 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 660470003464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470003465 Walker A/P-loop; other site 660470003466 ATP binding site [chemical binding]; other site 660470003467 Q-loop/lid; other site 660470003468 ABC transporter signature motif; other site 660470003469 Walker B; other site 660470003470 D-loop; other site 660470003471 H-loop/switch region; other site 660470003472 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 660470003473 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 660470003474 active site 660470003475 nucleophile elbow; other site 660470003476 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 660470003477 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 660470003478 active site 660470003479 Substrate binding site; other site 660470003480 Mg++ binding site; other site 660470003481 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 660470003482 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 660470003483 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 660470003484 active site 660470003485 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 660470003486 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 660470003487 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 660470003488 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 660470003489 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 660470003490 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 660470003491 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 660470003492 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 660470003493 dimer interface [polypeptide binding]; other site 660470003494 active site 660470003495 catalytic residue [active] 660470003496 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 660470003497 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 660470003498 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 660470003499 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 660470003500 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 660470003501 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 660470003502 trimer interface [polypeptide binding]; other site 660470003503 active site 660470003504 substrate binding site [chemical binding]; other site 660470003505 CoA binding site [chemical binding]; other site 660470003506 aspartate kinase; Reviewed; Region: PRK06635 660470003507 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 660470003508 putative nucleotide binding site [chemical binding]; other site 660470003509 putative catalytic residues [active] 660470003510 putative Mg ion binding site [ion binding]; other site 660470003511 putative aspartate binding site [chemical binding]; other site 660470003512 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 660470003513 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 660470003514 putative allosteric regulatory residue; other site 660470003515 acetylornithine aminotransferase; Provisional; Region: PRK02627 660470003516 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 660470003517 inhibitor-cofactor binding pocket; inhibition site 660470003518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470003519 catalytic residue [active] 660470003520 diaminopimelate decarboxylase; Region: lysA; TIGR01048 660470003521 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 660470003522 active site 660470003523 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 660470003524 substrate binding site [chemical binding]; other site 660470003525 catalytic residues [active] 660470003526 dimer interface [polypeptide binding]; other site 660470003527 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 660470003528 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470003529 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 660470003530 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470003531 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470003532 MULE transposase domain; Region: MULE; pfam10551 660470003533 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 660470003534 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 660470003535 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 660470003536 Walker A/P-loop; other site 660470003537 ATP binding site [chemical binding]; other site 660470003538 Q-loop/lid; other site 660470003539 ABC transporter signature motif; other site 660470003540 Walker B; other site 660470003541 D-loop; other site 660470003542 H-loop/switch region; other site 660470003543 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 660470003544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470003545 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 660470003546 Walker A/P-loop; other site 660470003547 ATP binding site [chemical binding]; other site 660470003548 Q-loop/lid; other site 660470003549 ABC transporter signature motif; other site 660470003550 Walker B; other site 660470003551 D-loop; other site 660470003552 H-loop/switch region; other site 660470003553 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 660470003554 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 660470003555 putative Zn2+ binding site [ion binding]; other site 660470003556 putative DNA binding site [nucleotide binding]; other site 660470003557 dimerization interface [polypeptide binding]; other site 660470003558 PIN domain; Region: PIN_3; cl17397 660470003559 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 660470003560 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 660470003561 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 660470003562 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 660470003563 putative NADP binding site [chemical binding]; other site 660470003564 putative substrate binding site [chemical binding]; other site 660470003565 active site 660470003566 MarR family; Region: MarR_2; pfam12802 660470003567 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 660470003568 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 660470003569 serine O-acetyltransferase; Region: cysE; TIGR01172 660470003570 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 660470003571 trimer interface [polypeptide binding]; other site 660470003572 active site 660470003573 substrate binding site [chemical binding]; other site 660470003574 CoA binding site [chemical binding]; other site 660470003575 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 660470003576 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 660470003577 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 660470003578 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470003579 MULE transposase domain; Region: MULE; pfam10551 660470003580 AAA domain; Region: AAA_14; pfam13173 660470003581 AAA domain; Region: AAA_22; pfam13401 660470003582 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 660470003583 RloB-like protein; Region: RloB; pfam13707 660470003584 AAA domain; Region: AAA_21; pfam13304 660470003585 PIN domain; Region: PIN_3; pfam13470 660470003586 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 660470003587 acyl-CoA dehydrogenase; Provisional; Region: PTZ00457 660470003588 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 660470003589 PemK-like protein; Region: PemK; pfam02452 660470003590 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 660470003591 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 660470003592 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 660470003593 AAA domain; Region: AAA_14; pfam13173 660470003594 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 660470003595 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 660470003596 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 660470003597 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 660470003598 four helix bundle protein; Region: TIGR02436 660470003599 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 660470003600 GIY-YIG motif/motif A; other site 660470003601 putative active site [active] 660470003602 putative metal binding site [ion binding]; other site 660470003603 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 660470003604 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 660470003605 active site 660470003606 catalytic residues [active] 660470003607 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 660470003608 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 660470003609 NADP-binding site; other site 660470003610 homotetramer interface [polypeptide binding]; other site 660470003611 substrate binding site [chemical binding]; other site 660470003612 homodimer interface [polypeptide binding]; other site 660470003613 active site 660470003614 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 660470003615 four helix bundle protein; Region: TIGR02436 660470003616 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 660470003617 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 660470003618 NADP binding site [chemical binding]; other site 660470003619 active site 660470003620 putative substrate binding site [chemical binding]; other site 660470003621 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 660470003622 GDP-Fucose binding site [chemical binding]; other site 660470003623 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 660470003624 active site 660470003625 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 660470003626 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470003627 ATP-grasp domain; Region: ATP-grasp_4; cl17255 660470003628 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 660470003629 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 660470003630 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470003631 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 660470003632 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 660470003633 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 660470003634 Ligand binding site; other site 660470003635 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470003636 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470003637 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470003638 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 660470003639 four helix bundle protein; Region: TIGR02436 660470003640 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 660470003641 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 660470003642 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 660470003643 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 660470003644 putative trimer interface [polypeptide binding]; other site 660470003645 putative CoA binding site [chemical binding]; other site 660470003646 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 660470003647 putative trimer interface [polypeptide binding]; other site 660470003648 putative active site [active] 660470003649 putative substrate binding site [chemical binding]; other site 660470003650 putative CoA binding site [chemical binding]; other site 660470003651 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 660470003652 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 660470003653 inhibitor-cofactor binding pocket; inhibition site 660470003654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470003655 catalytic residue [active] 660470003656 Transcriptional regulators [Transcription]; Region: MarR; COG1846 660470003657 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 660470003658 Archaeal ATPase; Region: Arch_ATPase; pfam01637 660470003659 AAA domain; Region: AAA_14; pfam13173 660470003660 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 660470003661 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470003662 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470003663 YcfA-like protein; Region: YcfA; pfam07927 660470003664 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 660470003665 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 660470003666 Predicted transcriptional regulator [Transcription]; Region: COG5340 660470003667 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 660470003668 Uncharacterized conserved protein [Function unknown]; Region: COG2361 660470003669 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 660470003670 active site 660470003671 NTP binding site [chemical binding]; other site 660470003672 metal binding triad [ion binding]; metal-binding site 660470003673 antibiotic binding site [chemical binding]; other site 660470003674 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 660470003675 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 660470003676 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 660470003677 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 660470003678 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 660470003679 ATP binding site [chemical binding]; other site 660470003680 putative Mg++ binding site [ion binding]; other site 660470003681 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 660470003682 nucleotide binding region [chemical binding]; other site 660470003683 ATP-binding site [chemical binding]; other site 660470003684 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 660470003685 PIN domain; Region: PIN_3; cl17397 660470003686 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 660470003687 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 660470003688 active site 660470003689 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 660470003690 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470003691 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470003692 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 660470003693 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470003694 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 660470003695 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 660470003696 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 660470003697 putative active site [active] 660470003698 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470003699 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470003700 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 660470003701 Radical SAM superfamily; Region: Radical_SAM; pfam04055 660470003702 FeS/SAM binding site; other site 660470003703 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 660470003704 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 660470003705 RNA binding site [nucleotide binding]; other site 660470003706 homodimer interface [polypeptide binding]; other site 660470003707 GTPase RsgA; Reviewed; Region: PRK00098 660470003708 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 660470003709 GTPase/Zn-binding domain interface [polypeptide binding]; other site 660470003710 GTP/Mg2+ binding site [chemical binding]; other site 660470003711 G4 box; other site 660470003712 G5 box; other site 660470003713 G1 box; other site 660470003714 Switch I region; other site 660470003715 G2 box; other site 660470003716 G3 box; other site 660470003717 Switch II region; other site 660470003718 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 660470003719 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470003720 putative active site [active] 660470003721 heme pocket [chemical binding]; other site 660470003722 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470003723 putative active site [active] 660470003724 heme pocket [chemical binding]; other site 660470003725 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 660470003726 Walker A motif; other site 660470003727 ATP binding site [chemical binding]; other site 660470003728 Walker B motif; other site 660470003729 arginine finger; other site 660470003730 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 660470003731 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 660470003732 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 660470003733 S-adenosylmethionine binding site [chemical binding]; other site 660470003734 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 660470003735 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 660470003736 active site 660470003737 substrate binding site [chemical binding]; other site 660470003738 metal binding site [ion binding]; metal-binding site 660470003739 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 660470003740 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 660470003741 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 660470003742 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 660470003743 type III secretion system protein; Provisional; Region: PRK15384; cl14665 660470003744 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470003745 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470003746 PAS domain S-box; Region: sensory_box; TIGR00229 660470003747 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470003748 putative active site [active] 660470003749 heme pocket [chemical binding]; other site 660470003750 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470003751 PAS fold; Region: PAS_3; pfam08447 660470003752 putative active site [active] 660470003753 heme pocket [chemical binding]; other site 660470003754 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470003755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470003756 metal binding site [ion binding]; metal-binding site 660470003757 active site 660470003758 I-site; other site 660470003759 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 660470003760 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470003761 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470003762 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470003763 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470003764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470003765 Walker A/P-loop; other site 660470003766 ATP binding site [chemical binding]; other site 660470003767 Q-loop/lid; other site 660470003768 ABC transporter signature motif; other site 660470003769 Walker B; other site 660470003770 D-loop; other site 660470003771 H-loop/switch region; other site 660470003772 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 660470003773 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 660470003774 Alpha amylase catalytic domain found in maltosyltransferase; Region: AmyAc_MTase_N; cd11335 660470003775 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 660470003776 homodimer interface [polypeptide binding]; other site 660470003777 active site 660470003778 catalytic site [active] 660470003779 maltose binding site 2 [chemical binding]; other site 660470003780 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 660470003781 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 660470003782 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 660470003783 23S rRNA interface [nucleotide binding]; other site 660470003784 L3 interface [polypeptide binding]; other site 660470003785 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 660470003786 DNA primase, catalytic core; Region: dnaG; TIGR01391 660470003787 CHC2 zinc finger; Region: zf-CHC2; pfam01807 660470003788 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 660470003789 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 660470003790 active site 660470003791 metal binding site [ion binding]; metal-binding site 660470003792 interdomain interaction site; other site 660470003793 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 660470003794 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 660470003795 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 660470003796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 660470003797 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 660470003798 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 660470003799 DNA binding residues [nucleotide binding] 660470003800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470003801 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 660470003802 Walker A/P-loop; other site 660470003803 ATP binding site [chemical binding]; other site 660470003804 Q-loop/lid; other site 660470003805 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 660470003806 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 660470003807 putative substrate binding site [chemical binding]; other site 660470003808 putative ATP binding site [chemical binding]; other site 660470003809 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 660470003810 FOG: CBS domain [General function prediction only]; Region: COG0517 660470003811 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 660470003812 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 660470003813 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 660470003814 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 660470003815 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 660470003816 homodimer interface [polypeptide binding]; other site 660470003817 substrate-cofactor binding pocket; other site 660470003818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470003819 catalytic residue [active] 660470003820 Protein of unknown function (DUF721); Region: DUF721; pfam05258 660470003821 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 660470003822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470003823 ATP binding site [chemical binding]; other site 660470003824 Mg2+ binding site [ion binding]; other site 660470003825 G-X-G motif; other site 660470003826 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 660470003827 anchoring element; other site 660470003828 dimer interface [polypeptide binding]; other site 660470003829 ATP binding site [chemical binding]; other site 660470003830 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 660470003831 active site 660470003832 putative metal-binding site [ion binding]; other site 660470003833 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 660470003834 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 660470003835 Cell division protein FtsA; Region: FtsA; cl17206 660470003836 Cell division protein FtsA; Region: FtsA; pfam14450 660470003837 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 660470003838 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 660470003839 nucleotide binding site [chemical binding]; other site 660470003840 SulA interaction site; other site 660470003841 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 660470003842 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 660470003843 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 660470003844 Walker A motif; other site 660470003845 ATP binding site [chemical binding]; other site 660470003846 Walker B motif; other site 660470003847 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 660470003848 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 660470003849 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 660470003850 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 660470003851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470003852 catalytic residue [active] 660470003853 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 660470003854 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 660470003855 B12 binding site [chemical binding]; other site 660470003856 cobalt ligand [ion binding]; other site 660470003857 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 660470003858 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 660470003859 Ligand Binding Site [chemical binding]; other site 660470003860 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 660470003861 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 660470003862 active site 660470003863 motif I; other site 660470003864 motif II; other site 660470003865 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 660470003866 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 660470003867 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 660470003868 putative active site [active] 660470003869 catalytic triad [active] 660470003870 putative dimer interface [polypeptide binding]; other site 660470003871 CoA binding domain; Region: CoA_binding; cl17356 660470003872 Transposase [DNA replication, recombination, and repair]; Region: COG5421 660470003873 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 660470003874 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 660470003875 active site 660470003876 dimerization interface [polypeptide binding]; other site 660470003877 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 660470003878 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 660470003879 putative tRNA-binding site [nucleotide binding]; other site 660470003880 B3/4 domain; Region: B3_4; pfam03483 660470003881 tRNA synthetase B5 domain; Region: B5; smart00874 660470003882 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 660470003883 dimer interface [polypeptide binding]; other site 660470003884 motif 1; other site 660470003885 motif 3; other site 660470003886 motif 2; other site 660470003887 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 660470003888 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 660470003889 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 660470003890 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 660470003891 dimer interface [polypeptide binding]; other site 660470003892 motif 1; other site 660470003893 active site 660470003894 motif 2; other site 660470003895 motif 3; other site 660470003896 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 660470003897 metal binding site 2 [ion binding]; metal-binding site 660470003898 putative DNA binding helix; other site 660470003899 metal binding site 1 [ion binding]; metal-binding site 660470003900 dimer interface [polypeptide binding]; other site 660470003901 structural Zn2+ binding site [ion binding]; other site 660470003902 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 660470003903 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 660470003904 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 660470003905 DNA binding residues [nucleotide binding] 660470003906 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 660470003907 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 660470003908 oligomer interface [polypeptide binding]; other site 660470003909 putative active site [active] 660470003910 metal binding site [ion binding]; metal-binding site 660470003911 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 660470003912 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 660470003913 minor groove reading motif; other site 660470003914 helix-hairpin-helix signature motif; other site 660470003915 substrate binding pocket [chemical binding]; other site 660470003916 active site 660470003917 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 660470003918 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 660470003919 dimer interface [polypeptide binding]; other site 660470003920 conserved gate region; other site 660470003921 putative PBP binding loops; other site 660470003922 ABC-ATPase subunit interface; other site 660470003923 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 660470003924 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 660470003925 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 660470003926 competence damage-inducible protein A; Provisional; Region: PRK00549 660470003927 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 660470003928 putative MPT binding site; other site 660470003929 Competence-damaged protein; Region: CinA; pfam02464 660470003930 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 660470003931 DEAD-like helicases superfamily; Region: DEXDc; smart00487 660470003932 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 660470003933 ATP binding site [chemical binding]; other site 660470003934 putative Mg++ binding site [ion binding]; other site 660470003935 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 660470003936 nucleotide binding region [chemical binding]; other site 660470003937 ATP-binding site [chemical binding]; other site 660470003938 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 660470003939 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 660470003940 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 660470003941 trmE is a tRNA modification GTPase; Region: trmE; cd04164 660470003942 G1 box; other site 660470003943 GTP/Mg2+ binding site [chemical binding]; other site 660470003944 Switch I region; other site 660470003945 G2 box; other site 660470003946 Switch II region; other site 660470003947 G3 box; other site 660470003948 G4 box; other site 660470003949 G5 box; other site 660470003950 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 660470003951 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 660470003952 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 660470003953 homodimer interface [polypeptide binding]; other site 660470003954 substrate-cofactor binding pocket; other site 660470003955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470003956 catalytic residue [active] 660470003957 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 660470003958 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 660470003959 putative NAD(P) binding site [chemical binding]; other site 660470003960 catalytic Zn binding site [ion binding]; other site 660470003961 structural Zn binding site [ion binding]; other site 660470003962 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 660470003963 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 660470003964 motif II; other site 660470003965 E3 Ubiquitin ligase; Region: GIDE; pfam12483 660470003966 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 660470003967 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 660470003968 nucleophile elbow; other site 660470003969 Predicted permeases [General function prediction only]; Region: COG0679 660470003970 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 660470003971 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470003972 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470003973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470003974 Walker A/P-loop; other site 660470003975 ATP binding site [chemical binding]; other site 660470003976 Q-loop/lid; other site 660470003977 ABC transporter signature motif; other site 660470003978 Walker B; other site 660470003979 D-loop; other site 660470003980 H-loop/switch region; other site 660470003981 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470003982 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 660470003983 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470003984 TM-ABC transporter signature motif; other site 660470003985 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 660470003986 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470003987 TM-ABC transporter signature motif; other site 660470003988 short chain dehydrogenase; Provisional; Region: PRK06172 660470003989 classical (c) SDRs; Region: SDR_c; cd05233 660470003990 NAD(P) binding site [chemical binding]; other site 660470003991 active site 660470003992 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 660470003993 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 660470003994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470003995 Coenzyme A binding pocket [chemical binding]; other site 660470003996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 660470003997 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 660470003998 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 660470003999 Walker A/P-loop; other site 660470004000 ATP binding site [chemical binding]; other site 660470004001 Q-loop/lid; other site 660470004002 ABC transporter signature motif; other site 660470004003 Walker B; other site 660470004004 D-loop; other site 660470004005 H-loop/switch region; other site 660470004006 Predicted transcriptional regulators [Transcription]; Region: COG1725 660470004007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470004008 DNA-binding site [nucleotide binding]; DNA binding site 660470004009 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 660470004010 putative FMN binding site [chemical binding]; other site 660470004011 NADPH bind site [chemical binding]; other site 660470004012 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470004013 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 660470004014 dimerization interface [polypeptide binding]; other site 660470004015 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 660470004016 dimer interface [polypeptide binding]; other site 660470004017 phosphorylation site [posttranslational modification] 660470004018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470004019 ATP binding site [chemical binding]; other site 660470004020 Mg2+ binding site [ion binding]; other site 660470004021 G-X-G motif; other site 660470004022 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 660470004023 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470004024 active site 660470004025 phosphorylation site [posttranslational modification] 660470004026 intermolecular recognition site; other site 660470004027 dimerization interface [polypeptide binding]; other site 660470004028 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 660470004029 DNA binding site [nucleotide binding] 660470004030 Putative esterase; Region: Esterase; pfam00756 660470004031 Protein of unknown function DUF89; Region: DUF89; cl15397 660470004032 arginine decarboxylase; Provisional; Region: PRK15029 660470004033 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 660470004034 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 660470004035 homodimer interface [polypeptide binding]; other site 660470004036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470004037 catalytic residue [active] 660470004038 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 660470004039 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 660470004040 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 660470004041 dimer interface [polypeptide binding]; other site 660470004042 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 660470004043 Uncharacterized conserved protein [Function unknown]; Region: COG3461 660470004044 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 660470004045 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 660470004046 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 660470004047 HIGH motif; other site 660470004048 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 660470004049 active site 660470004050 KMSKS motif; other site 660470004051 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 660470004052 tRNA binding surface [nucleotide binding]; other site 660470004053 anticodon binding site; other site 660470004054 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 660470004055 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 660470004056 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 660470004057 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 660470004058 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 660470004059 catalytic loop [active] 660470004060 iron binding site [ion binding]; other site 660470004061 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 660470004062 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 660470004063 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 660470004064 Putative cyclase; Region: Cyclase; pfam04199 660470004065 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 660470004066 membrane protein FdrA; Validated; Region: PRK06091 660470004067 CoA binding domain; Region: CoA_binding; cl17356 660470004068 CoA-ligase; Region: Ligase_CoA; pfam00549 660470004069 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 660470004070 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 660470004071 CoA-transferase family III; Region: CoA_transf_3; pfam02515 660470004072 N-carbamolyputrescine amidase; Region: PLN02747 660470004073 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 660470004074 active site 660470004075 catalytic triad [active] 660470004076 dimer interface [polypeptide binding]; other site 660470004077 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 660470004078 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 660470004079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470004080 catalytic residue [active] 660470004081 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 660470004082 IHF dimer interface [polypeptide binding]; other site 660470004083 IHF - DNA interface [nucleotide binding]; other site 660470004084 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 660470004085 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 660470004086 GIY-YIG motif/motif A; other site 660470004087 active site 660470004088 catalytic site [active] 660470004089 putative DNA binding site [nucleotide binding]; other site 660470004090 metal binding site [ion binding]; metal-binding site 660470004091 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 660470004092 Protein of unknown function (DUF501); Region: DUF501; pfam04417 660470004093 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 660470004094 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 660470004095 S-adenosylmethionine binding site [chemical binding]; other site 660470004096 ribonuclease III; Reviewed; Region: rnc; PRK00102 660470004097 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 660470004098 dimerization interface [polypeptide binding]; other site 660470004099 active site 660470004100 metal binding site [ion binding]; metal-binding site 660470004101 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 660470004102 dsRNA binding site [nucleotide binding]; other site 660470004103 transketolase; Reviewed; Region: PRK05899 660470004104 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 660470004105 TPP-binding site [chemical binding]; other site 660470004106 dimer interface [polypeptide binding]; other site 660470004107 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 660470004108 PYR/PP interface [polypeptide binding]; other site 660470004109 dimer interface [polypeptide binding]; other site 660470004110 TPP binding site [chemical binding]; other site 660470004111 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 660470004112 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 660470004113 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 660470004114 DNA polymerase III subunit delta'; Validated; Region: PRK08485 660470004115 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 660470004116 active site 660470004117 multimer interface [polypeptide binding]; other site 660470004118 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 660470004119 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 660470004120 putative RNA binding site [nucleotide binding]; other site 660470004121 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 660470004122 S-adenosylmethionine binding site [chemical binding]; other site 660470004123 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 660470004124 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 660470004125 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 660470004126 ligand binding site; other site 660470004127 oligomer interface; other site 660470004128 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 660470004129 dimer interface [polypeptide binding]; other site 660470004130 N-terminal domain interface [polypeptide binding]; other site 660470004131 sulfate 1 binding site; other site 660470004132 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 660470004133 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 660470004134 ligand binding site; other site 660470004135 oligomer interface; other site 660470004136 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 660470004137 dimer interface [polypeptide binding]; other site 660470004138 N-terminal domain interface [polypeptide binding]; other site 660470004139 sulfate 1 binding site; other site 660470004140 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 660470004141 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 660470004142 active site 660470004143 metal binding site [ion binding]; metal-binding site 660470004144 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 660470004145 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 660470004146 SLBB domain; Region: SLBB; pfam10531 660470004147 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 660470004148 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 660470004149 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 660470004150 FMN-binding domain; Region: FMN_bind; cl01081 660470004151 electron transport complex RsxE subunit; Provisional; Region: PRK12405 660470004152 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 660470004153 Putative Fe-S cluster; Region: FeS; cl17515 660470004154 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 660470004155 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 660470004156 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 660470004157 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 660470004158 RIP metalloprotease RseP; Region: TIGR00054 660470004159 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 660470004160 active site 660470004161 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 660470004162 protein binding site [polypeptide binding]; other site 660470004163 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 660470004164 putative substrate binding region [chemical binding]; other site 660470004165 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 660470004166 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 660470004167 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 660470004168 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 660470004169 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 660470004170 NAD binding site [chemical binding]; other site 660470004171 dimer interface [polypeptide binding]; other site 660470004172 substrate binding site [chemical binding]; other site 660470004173 tetramer (dimer of dimers) interface [polypeptide binding]; other site 660470004174 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 660470004175 PEGA domain; Region: PEGA; pfam08308 660470004176 PEGA domain; Region: PEGA; pfam08308 660470004177 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 660470004178 EamA-like transporter family; Region: EamA; pfam00892 660470004179 EamA-like transporter family; Region: EamA; pfam00892 660470004180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470004181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470004182 active site 660470004183 phosphorylation site [posttranslational modification] 660470004184 intermolecular recognition site; other site 660470004185 dimerization interface [polypeptide binding]; other site 660470004186 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 660470004187 DNA binding site [nucleotide binding] 660470004188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470004189 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 660470004190 dimerization interface [polypeptide binding]; other site 660470004191 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 660470004192 dimer interface [polypeptide binding]; other site 660470004193 phosphorylation site [posttranslational modification] 660470004194 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470004195 ATP binding site [chemical binding]; other site 660470004196 Mg2+ binding site [ion binding]; other site 660470004197 G-X-G motif; other site 660470004198 Phospholipid methyltransferase; Region: PEMT; cl17370 660470004199 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 660470004200 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 660470004201 putative acyl-acceptor binding pocket; other site 660470004202 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 660470004203 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 660470004204 active site 660470004205 metal binding site [ion binding]; metal-binding site 660470004206 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 660470004207 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470004208 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470004209 EDD domain protein, DegV family; Region: DegV; TIGR00762 660470004210 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 660470004211 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 660470004212 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 660470004213 diiron binding motif [ion binding]; other site 660470004214 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 660470004215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 660470004216 NAD(P) binding site [chemical binding]; other site 660470004217 active site 660470004218 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 660470004219 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 660470004220 metal binding site [ion binding]; metal-binding site 660470004221 dimer interface [polypeptide binding]; other site 660470004222 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); Region: PCMT; pfam01135 660470004223 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 660470004224 S-adenosylmethionine binding site [chemical binding]; other site 660470004225 hypothetical protein; Provisional; Region: PRK10621 660470004226 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 660470004227 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 660470004228 MarR family; Region: MarR; pfam01047 660470004229 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 660470004230 catalytic residues [active] 660470004231 dimer interface [polypeptide binding]; other site 660470004232 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 660470004233 Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain [Energy production and conversion]; Region: FumA; COG1838 660470004234 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 660470004235 Malic enzyme, N-terminal domain; Region: malic; pfam00390 660470004236 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 660470004237 putative NAD(P) binding site [chemical binding]; other site 660470004238 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 660470004239 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 660470004240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470004241 homodimer interface [polypeptide binding]; other site 660470004242 catalytic residue [active] 660470004243 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470004244 nucleotide binding site [chemical binding]; other site 660470004245 Acetokinase family; Region: Acetate_kinase; cl17229 660470004246 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 660470004247 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470004248 nucleotide binding site [chemical binding]; other site 660470004249 Acetokinase family; Region: Acetate_kinase; cl17229 660470004250 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 660470004251 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 660470004252 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 660470004253 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 660470004254 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 660470004255 dimer interface [polypeptide binding]; other site 660470004256 PYR/PP interface [polypeptide binding]; other site 660470004257 TPP binding site [chemical binding]; other site 660470004258 substrate binding site [chemical binding]; other site 660470004259 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 660470004260 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 660470004261 TPP-binding site [chemical binding]; other site 660470004262 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 660470004263 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 660470004264 zinc transporter ZupT; Provisional; Region: PRK04201 660470004265 ZIP Zinc transporter; Region: Zip; pfam02535 660470004266 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 660470004267 dimerization interface [polypeptide binding]; other site 660470004268 putative DNA binding site [nucleotide binding]; other site 660470004269 putative Zn2+ binding site [ion binding]; other site 660470004270 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 660470004271 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 660470004272 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 660470004273 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470004274 hybrid cluster protein; Provisional; Region: PRK05290 660470004275 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 660470004276 ACS interaction site; other site 660470004277 CODH interaction site; other site 660470004278 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 660470004279 hybrid metal cluster; other site 660470004280 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 660470004281 Flagellin N-methylase; Region: FliB; cl00497 660470004282 xylose isomerase; Provisional; Region: PRK05474 660470004283 xylose isomerase; Region: xylose_isom_A; TIGR02630 660470004284 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 660470004285 N- and C-terminal domain interface [polypeptide binding]; other site 660470004286 D-xylulose kinase; Region: XylB; TIGR01312 660470004287 active site 660470004288 MgATP binding site [chemical binding]; other site 660470004289 catalytic site [active] 660470004290 metal binding site [ion binding]; metal-binding site 660470004291 xylulose binding site [chemical binding]; other site 660470004292 homodimer interface [polypeptide binding]; other site 660470004293 putative DNA binding site [nucleotide binding]; other site 660470004294 Transcriptional regulators [Transcription]; Region: MarR; COG1846 660470004295 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 660470004296 putative Zn2+ binding site [ion binding]; other site 660470004297 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470004298 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470004299 nucleotide binding site [chemical binding]; other site 660470004300 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 660470004301 dimerization interface [polypeptide binding]; other site 660470004302 putative DNA binding site [nucleotide binding]; other site 660470004303 putative Zn2+ binding site [ion binding]; other site 660470004304 PGAP1-like protein; Region: PGAP1; pfam07819 660470004305 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470004306 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 660470004307 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 660470004308 Walker A/P-loop; other site 660470004309 ATP binding site [chemical binding]; other site 660470004310 Q-loop/lid; other site 660470004311 ABC transporter signature motif; other site 660470004312 Walker B; other site 660470004313 D-loop; other site 660470004314 H-loop/switch region; other site 660470004315 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 660470004316 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 660470004317 Walker A/P-loop; other site 660470004318 ATP binding site [chemical binding]; other site 660470004319 Q-loop/lid; other site 660470004320 ABC transporter signature motif; other site 660470004321 Walker B; other site 660470004322 D-loop; other site 660470004323 H-loop/switch region; other site 660470004324 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 660470004325 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 660470004326 TM-ABC transporter signature motif; other site 660470004327 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470004328 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 660470004329 TM-ABC transporter signature motif; other site 660470004330 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 660470004331 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470004332 putative acyltransferase; Provisional; Region: PRK05790 660470004333 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 660470004334 dimer interface [polypeptide binding]; other site 660470004335 active site 660470004336 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 660470004337 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 660470004338 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 660470004339 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470004340 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470004341 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470004342 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470004343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 660470004344 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 660470004345 NAD(P) binding site [chemical binding]; other site 660470004346 homotetramer interface [polypeptide binding]; other site 660470004347 homodimer interface [polypeptide binding]; other site 660470004348 active site 660470004349 hypothetical protein; Validated; Region: PRK06840 660470004350 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 660470004351 active site 660470004352 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 660470004353 TAP-like protein; Region: Abhydrolase_4; pfam08386 660470004354 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 660470004355 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 660470004356 dimer interface [polypeptide binding]; other site 660470004357 active site 660470004358 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 660470004359 Methyltransferase domain; Region: Methyltransf_31; pfam13847 660470004360 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 660470004361 S-adenosylmethionine binding site [chemical binding]; other site 660470004362 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470004363 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470004364 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470004365 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470004366 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470004367 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470004368 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 660470004369 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 660470004370 hinge; other site 660470004371 active site 660470004372 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 660470004373 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 660470004374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 660470004375 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 660470004376 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470004377 putative substrate translocation pore; other site 660470004378 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470004379 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470004380 DNA binding site [nucleotide binding] 660470004381 domain linker motif; other site 660470004382 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470004383 dimerization interface [polypeptide binding]; other site 660470004384 ligand binding site [chemical binding]; other site 660470004385 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 660470004386 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 660470004387 catalytic residues [active] 660470004388 NHL repeat; Region: NHL; pfam01436 660470004389 putative DNA binding site [nucleotide binding]; other site 660470004390 Transcriptional regulators [Transcription]; Region: MarR; COG1846 660470004391 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 660470004392 putative Zn2+ binding site [ion binding]; other site 660470004393 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470004394 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470004395 nucleotide binding site [chemical binding]; other site 660470004396 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470004397 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470004398 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 660470004399 dimer interface [polypeptide binding]; other site 660470004400 conserved gate region; other site 660470004401 putative PBP binding loops; other site 660470004402 ABC-ATPase subunit interface; other site 660470004403 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470004404 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 660470004405 dimer interface [polypeptide binding]; other site 660470004406 conserved gate region; other site 660470004407 putative PBP binding loops; other site 660470004408 ABC-ATPase subunit interface; other site 660470004409 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 660470004410 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 660470004411 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470004412 catalytic residue [active] 660470004413 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 660470004414 active site 660470004415 catalytic site [active] 660470004416 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 660470004417 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 660470004418 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470004419 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 660470004420 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 660470004421 dimer interface [polypeptide binding]; other site 660470004422 active site 660470004423 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470004424 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 660470004425 substrate binding site [chemical binding]; other site 660470004426 ATP binding site [chemical binding]; other site 660470004427 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 660470004428 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 660470004429 motif II; other site 660470004430 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 660470004431 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 660470004432 substrate binding site; other site 660470004433 dimer interface; other site 660470004434 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 660470004435 Uncharacterized conserved protein [Function unknown]; Region: COG4198 660470004436 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 660470004437 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 660470004438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470004439 Zn2+ binding site [ion binding]; other site 660470004440 Mg2+ binding site [ion binding]; other site 660470004441 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 660470004442 PhoH-like protein; Region: PhoH; pfam02562 660470004443 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 660470004444 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 660470004445 Walker A motif; other site 660470004446 ATP binding site [chemical binding]; other site 660470004447 Walker B motif; other site 660470004448 arginine finger; other site 660470004449 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 660470004450 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 660470004451 active site 660470004452 substrate binding site [chemical binding]; other site 660470004453 metal binding site [ion binding]; metal-binding site 660470004454 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 660470004455 FeoA domain; Region: FeoA; pfam04023 660470004456 FeoA domain; Region: FeoA; cl00838 660470004457 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 660470004458 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 660470004459 G1 box; other site 660470004460 GTP/Mg2+ binding site [chemical binding]; other site 660470004461 Switch I region; other site 660470004462 G2 box; other site 660470004463 G3 box; other site 660470004464 Switch II region; other site 660470004465 G4 box; other site 660470004466 G5 box; other site 660470004467 Nucleoside recognition; Region: Gate; pfam07670 660470004468 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 660470004469 Nucleoside recognition; Region: Gate; pfam07670 660470004470 Response regulator receiver domain; Region: Response_reg; pfam00072 660470004471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470004472 active site 660470004473 phosphorylation site [posttranslational modification] 660470004474 intermolecular recognition site; other site 660470004475 dimerization interface [polypeptide binding]; other site 660470004476 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 660470004477 TrkA-N domain; Region: TrkA_N; pfam02254 660470004478 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 660470004479 TrkA-N domain; Region: TrkA_N; pfam02254 660470004480 TrkA-C domain; Region: TrkA_C; pfam02080 660470004481 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 660470004482 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 660470004483 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 660470004484 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 660470004485 dimer interface [polypeptide binding]; other site 660470004486 motif 1; other site 660470004487 active site 660470004488 motif 2; other site 660470004489 motif 3; other site 660470004490 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 660470004491 anticodon binding site; other site 660470004492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 660470004493 Uncharacterized conserved protein [Function unknown]; Region: COG1543 660470004494 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 660470004495 active site 660470004496 substrate binding site [chemical binding]; other site 660470004497 catalytic site [active] 660470004498 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 660470004499 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 660470004500 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 660470004501 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 660470004502 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 660470004503 active site 660470004504 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 660470004505 putative homodimer interface [polypeptide binding]; other site 660470004506 putative homotetramer interface [polypeptide binding]; other site 660470004507 putative allosteric switch controlling residues; other site 660470004508 putative metal binding site [ion binding]; other site 660470004509 putative homodimer-homodimer interface [polypeptide binding]; other site 660470004510 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 660470004511 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 660470004512 S-adenosylmethionine binding site [chemical binding]; other site 660470004513 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 660470004514 C-terminal peptidase (prc); Region: prc; TIGR00225 660470004515 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 660470004516 protein binding site [polypeptide binding]; other site 660470004517 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 660470004518 Catalytic dyad [active] 660470004519 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 660470004520 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 660470004521 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 660470004522 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 660470004523 active site 660470004524 metal binding site [ion binding]; metal-binding site 660470004525 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 660470004526 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 660470004527 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 660470004528 NAD(P) binding site [chemical binding]; other site 660470004529 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 660470004530 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 660470004531 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 660470004532 active site 660470004533 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 660470004534 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 660470004535 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 660470004536 oxaloacetate decarboxylase; Provisional; Region: PRK14041 660470004537 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 660470004538 active site 660470004539 catalytic residues [active] 660470004540 metal binding site [ion binding]; metal-binding site 660470004541 homodimer binding site [polypeptide binding]; other site 660470004542 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 660470004543 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470004544 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 660470004545 dimer interface [polypeptide binding]; other site 660470004546 conserved gate region; other site 660470004547 putative PBP binding loops; other site 660470004548 ABC-ATPase subunit interface; other site 660470004549 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470004550 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 660470004551 dimer interface [polypeptide binding]; other site 660470004552 conserved gate region; other site 660470004553 putative PBP binding loops; other site 660470004554 ABC-ATPase subunit interface; other site 660470004555 Uncharacterized conserved protein [Function unknown]; Region: COG3379 660470004556 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 660470004557 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 660470004558 Glycoprotease family; Region: Peptidase_M22; pfam00814 660470004559 Uncharacterized conserved protein [Function unknown]; Region: COG1284 660470004560 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 660470004561 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 660470004562 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 660470004563 chaperone protein DnaJ; Provisional; Region: PRK14282 660470004564 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 660470004565 HSP70 interaction site [polypeptide binding]; other site 660470004566 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 660470004567 Zn binding sites [ion binding]; other site 660470004568 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 660470004569 dimer interface [polypeptide binding]; other site 660470004570 GrpE; Region: GrpE; pfam01025 660470004571 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 660470004572 dimer interface [polypeptide binding]; other site 660470004573 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 660470004574 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 660470004575 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 660470004576 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 660470004577 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 660470004578 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 660470004579 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 660470004580 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 660470004581 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 660470004582 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 660470004583 Mg++ binding site [ion binding]; other site 660470004584 putative catalytic motif [active] 660470004585 putative substrate binding site [chemical binding]; other site 660470004586 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 660470004587 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 660470004588 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 660470004589 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 660470004590 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 660470004591 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 660470004592 active site 660470004593 homodimer interface [polypeptide binding]; other site 660470004594 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 660470004595 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 660470004596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 660470004597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 660470004598 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 660470004599 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 660470004600 B12 binding site [chemical binding]; other site 660470004601 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 660470004602 FeS/SAM binding site; other site 660470004603 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 660470004604 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 660470004605 oligomer interface [polypeptide binding]; other site 660470004606 active site 660470004607 metal binding site [ion binding]; metal-binding site 660470004608 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 660470004609 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 660470004610 B12 binding site [chemical binding]; other site 660470004611 cobalt ligand [ion binding]; other site 660470004612 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 660470004613 Walker A; other site 660470004614 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 660470004615 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 660470004616 dimer interface [polypeptide binding]; other site 660470004617 substrate binding site [chemical binding]; other site 660470004618 metal binding site [ion binding]; metal-binding site 660470004619 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 660470004620 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 660470004621 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 660470004622 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 660470004623 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 660470004624 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 660470004625 carboxyltransferase (CT) interaction site; other site 660470004626 biotinylation site [posttranslational modification]; other site 660470004627 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 660470004628 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 660470004629 active site 660470004630 DNA binding site [nucleotide binding] 660470004631 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 660470004632 active site 660470004633 dimer interfaces [polypeptide binding]; other site 660470004634 catalytic residues [active] 660470004635 Uncharacterized conserved protein [Function unknown]; Region: COG0062 660470004636 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 660470004637 putative substrate binding site [chemical binding]; other site 660470004638 putative ATP binding site [chemical binding]; other site 660470004639 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 660470004640 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 660470004641 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 660470004642 Thiamine pyrophosphokinase; Region: TPK; cd07995 660470004643 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 660470004644 active site 660470004645 dimerization interface [polypeptide binding]; other site 660470004646 thiamine binding site [chemical binding]; other site 660470004647 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 660470004648 active site 660470004649 metal binding site [ion binding]; metal-binding site 660470004650 homotetramer interface [polypeptide binding]; other site 660470004651 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 660470004652 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 660470004653 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 660470004654 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 660470004655 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 660470004656 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 660470004657 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 660470004658 G1 box; other site 660470004659 putative GEF interaction site [polypeptide binding]; other site 660470004660 GTP/Mg2+ binding site [chemical binding]; other site 660470004661 Switch I region; other site 660470004662 G2 box; other site 660470004663 G3 box; other site 660470004664 Switch II region; other site 660470004665 G4 box; other site 660470004666 G5 box; other site 660470004667 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 660470004668 Translation-initiation factor 2; Region: IF-2; pfam11987 660470004669 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 660470004670 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 660470004671 Peptidase family M48; Region: Peptidase_M48; cl12018 660470004672 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 660470004673 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 660470004674 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 660470004675 active site 660470004676 motif I; other site 660470004677 motif II; other site 660470004678 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 660470004679 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 660470004680 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 660470004681 catalytic residues [active] 660470004682 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 660470004683 galactokinase; Provisional; Region: PRK03817 660470004684 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 660470004685 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 660470004686 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470004687 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470004688 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470004689 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 660470004690 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 660470004691 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470004692 catalytic residue [active] 660470004693 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 660470004694 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 660470004695 catalytic site [active] 660470004696 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 660470004697 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 660470004698 active site 660470004699 homodimer interface [polypeptide binding]; other site 660470004700 catalytic site [active] 660470004701 EamA-like transporter family; Region: EamA; pfam00892 660470004702 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 660470004703 EamA-like transporter family; Region: EamA; pfam00892 660470004704 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 660470004705 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 660470004706 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 660470004707 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 660470004708 trimer interface [polypeptide binding]; other site 660470004709 active site 660470004710 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 660470004711 catalytic site [active] 660470004712 SCP-2 sterol transfer family; Region: SCP2; pfam02036 660470004713 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 660470004714 Acylphosphatase; Region: Acylphosphatase; pfam00708 660470004715 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 660470004716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470004717 Zn2+ binding site [ion binding]; other site 660470004718 Mg2+ binding site [ion binding]; other site 660470004719 Survival protein SurE; Region: SurE; cl00448 660470004720 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 660470004721 active site 660470004722 catalytic residues [active] 660470004723 metal binding site [ion binding]; metal-binding site 660470004724 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 660470004725 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 660470004726 putative active site [active] 660470004727 substrate binding site [chemical binding]; other site 660470004728 putative cosubstrate binding site; other site 660470004729 catalytic site [active] 660470004730 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 660470004731 substrate binding site [chemical binding]; other site 660470004732 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 660470004733 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 660470004734 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 660470004735 DEAD_2; Region: DEAD_2; pfam06733 660470004736 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 660470004737 comF family protein; Region: comF; TIGR00201 660470004738 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 660470004739 active site 660470004740 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470004741 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 660470004742 putative ADP-binding pocket [chemical binding]; other site 660470004743 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 660470004744 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 660470004745 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 660470004746 NTPase; Region: NTPase_1; cl17478 660470004747 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 660470004748 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...; Region: RuvC_resolvase; cd00529 660470004749 active site 660470004750 putative DNA-binding cleft [nucleotide binding]; other site 660470004751 dimer interface [polypeptide binding]; other site 660470004752 DNA polymerase III PolC; Validated; Region: polC; PRK00448 660470004753 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 660470004754 generic binding surface II; other site 660470004755 generic binding surface I; other site 660470004756 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 660470004757 active site 660470004758 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 660470004759 active site 660470004760 catalytic site [active] 660470004761 substrate binding site [chemical binding]; other site 660470004762 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 660470004763 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470004764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470004765 Walker A/P-loop; other site 660470004766 ATP binding site [chemical binding]; other site 660470004767 Q-loop/lid; other site 660470004768 ABC transporter signature motif; other site 660470004769 Walker B; other site 660470004770 D-loop; other site 660470004771 H-loop/switch region; other site 660470004772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470004773 Walker B; other site 660470004774 D-loop; other site 660470004775 H-loop/switch region; other site 660470004776 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 660470004777 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 660470004778 substrate binding pocket [chemical binding]; other site 660470004779 membrane-bound complex binding site; other site 660470004780 hinge residues; other site 660470004781 PAS domain S-box; Region: sensory_box; TIGR00229 660470004782 GAF domain; Region: GAF; cl17456 660470004783 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470004784 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470004785 metal binding site [ion binding]; metal-binding site 660470004786 active site 660470004787 I-site; other site 660470004788 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470004789 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470004790 Zn2+ binding site [ion binding]; other site 660470004791 Mg2+ binding site [ion binding]; other site 660470004792 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 660470004793 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 660470004794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 660470004795 putative hydrolase; Provisional; Region: PRK02113 660470004796 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470004797 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470004798 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470004799 binding surface 660470004800 TPR motif; other site 660470004801 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470004802 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470004803 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470004804 metal binding site [ion binding]; metal-binding site 660470004805 active site 660470004806 I-site; other site 660470004807 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470004808 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470004809 binding surface 660470004810 TPR motif; other site 660470004811 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470004812 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470004813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470004814 metal binding site [ion binding]; metal-binding site 660470004815 active site 660470004816 I-site; other site 660470004817 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 660470004818 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 660470004819 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 660470004820 active site 660470004821 catalytic site [active] 660470004822 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 660470004823 putative ligand binding site [chemical binding]; other site 660470004824 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 660470004825 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470004826 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 660470004827 Walker A/P-loop; other site 660470004828 ATP binding site [chemical binding]; other site 660470004829 Q-loop/lid; other site 660470004830 ABC transporter signature motif; other site 660470004831 Walker B; other site 660470004832 D-loop; other site 660470004833 H-loop/switch region; other site 660470004834 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 660470004835 FtsX-like permease family; Region: FtsX; pfam02687 660470004836 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 660470004837 homodimer interface [polypeptide binding]; other site 660470004838 homotetramer interface [polypeptide binding]; other site 660470004839 active site pocket [active] 660470004840 cleavage site 660470004841 PAS domain; Region: PAS_9; pfam13426 660470004842 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470004843 putative active site [active] 660470004844 heme pocket [chemical binding]; other site 660470004845 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470004846 putative active site [active] 660470004847 PAS fold; Region: PAS_3; pfam08447 660470004848 heme pocket [chemical binding]; other site 660470004849 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470004850 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470004851 Zn2+ binding site [ion binding]; other site 660470004852 Mg2+ binding site [ion binding]; other site 660470004853 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 660470004854 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 660470004855 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 660470004856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 660470004857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470004858 Coenzyme A binding pocket [chemical binding]; other site 660470004859 Bacterial PH domain; Region: DUF304; cl01348 660470004860 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 660470004861 Family description; Region: UvrD_C_2; pfam13538 660470004862 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 660470004863 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 660470004864 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 660470004865 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 660470004866 putative substrate translocation pore; other site 660470004867 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470004868 DctM-like transporters; Region: DctM; pfam06808 660470004869 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 660470004870 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470004871 MULE transposase domain; Region: MULE; pfam10551 660470004872 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 660470004873 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 660470004874 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 660470004875 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470004876 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470004877 DNA binding site [nucleotide binding] 660470004878 domain linker motif; other site 660470004879 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470004880 dimerization interface [polypeptide binding]; other site 660470004881 ligand binding site [chemical binding]; other site 660470004882 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470004883 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 660470004884 dimer interface [polypeptide binding]; other site 660470004885 conserved gate region; other site 660470004886 putative PBP binding loops; other site 660470004887 ABC-ATPase subunit interface; other site 660470004888 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470004889 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 660470004890 dimer interface [polypeptide binding]; other site 660470004891 conserved gate region; other site 660470004892 putative PBP binding loops; other site 660470004893 ABC-ATPase subunit interface; other site 660470004894 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470004895 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470004896 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 660470004897 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 660470004898 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470004899 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470004900 putative active site [active] 660470004901 putative NTP binding site [chemical binding]; other site 660470004902 putative nucleic acid binding site [nucleotide binding]; other site 660470004903 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470004904 Uncharacterized conserved protein [Function unknown]; Region: COG5361 660470004905 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 660470004906 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 660470004907 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470004908 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470004909 putative active site [active] 660470004910 putative NTP binding site [chemical binding]; other site 660470004911 putative nucleic acid binding site [nucleotide binding]; other site 660470004912 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470004913 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 660470004914 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 660470004915 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cl03649 660470004916 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 660470004917 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 660470004918 ATP binding site [chemical binding]; other site 660470004919 putative Mg++ binding site [ion binding]; other site 660470004920 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 660470004921 nucleotide binding region [chemical binding]; other site 660470004922 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 660470004923 ATP-binding site [chemical binding]; other site 660470004924 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 660470004925 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 660470004926 CRISPR system related protein, RAMP superfamily [Defense mechanisms]; Region: COG1336 660470004927 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 660470004928 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 660470004929 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 660470004930 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 660470004931 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 660470004932 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09742 660470004933 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 660470004934 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 660470004935 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 660470004936 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 660470004937 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 660470004938 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 660470004939 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 660470004940 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 660470004941 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 660470004942 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 660470004943 ADP-ribose binding site [chemical binding]; other site 660470004944 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 660470004945 RPB1 interaction site [polypeptide binding]; other site 660470004946 RPB10 interaction site [polypeptide binding]; other site 660470004947 RPB11 interaction site [polypeptide binding]; other site 660470004948 RPB3 interaction site [polypeptide binding]; other site 660470004949 RPB12 interaction site [polypeptide binding]; other site 660470004950 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 660470004951 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 660470004952 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 660470004953 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 660470004954 Walker A motif; other site 660470004955 ATP binding site [chemical binding]; other site 660470004956 Walker B motif; other site 660470004957 arginine finger; other site 660470004958 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 660470004959 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470004960 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470004961 putative active site [active] 660470004962 putative NTP binding site [chemical binding]; other site 660470004963 putative nucleic acid binding site [nucleotide binding]; other site 660470004964 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470004965 Domain of unknown function (DUF377); Region: DUF377; pfam04041 660470004966 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 660470004967 active site 660470004968 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470004969 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470004970 DNA binding site [nucleotide binding] 660470004971 domain linker motif; other site 660470004972 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470004973 dimerization interface [polypeptide binding]; other site 660470004974 ligand binding site [chemical binding]; other site 660470004975 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 660470004976 beta-galactosidase; Region: BGL; TIGR03356 660470004977 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 660470004978 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470004979 Walker A/P-loop; other site 660470004980 ATP binding site [chemical binding]; other site 660470004981 Q-loop/lid; other site 660470004982 ABC transporter signature motif; other site 660470004983 Walker B; other site 660470004984 D-loop; other site 660470004985 H-loop/switch region; other site 660470004986 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 660470004987 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470004988 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470004989 Walker A/P-loop; other site 660470004990 ATP binding site [chemical binding]; other site 660470004991 Q-loop/lid; other site 660470004992 ABC transporter signature motif; other site 660470004993 Walker B; other site 660470004994 D-loop; other site 660470004995 H-loop/switch region; other site 660470004996 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470004997 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470004998 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 660470004999 dimer interface [polypeptide binding]; other site 660470005000 conserved gate region; other site 660470005001 putative PBP binding loops; other site 660470005002 ABC-ATPase subunit interface; other site 660470005003 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470005004 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 660470005005 dimer interface [polypeptide binding]; other site 660470005006 conserved gate region; other site 660470005007 putative PBP binding loops; other site 660470005008 ABC-ATPase subunit interface; other site 660470005009 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 660470005010 substrate binding site [chemical binding]; other site 660470005011 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470005012 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 660470005013 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470005014 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 660470005015 dimer interface [polypeptide binding]; other site 660470005016 conserved gate region; other site 660470005017 putative PBP binding loops; other site 660470005018 ABC-ATPase subunit interface; other site 660470005019 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 660470005020 dimer interface [polypeptide binding]; other site 660470005021 conserved gate region; other site 660470005022 putative PBP binding loops; other site 660470005023 ABC-ATPase subunit interface; other site 660470005024 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470005025 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 660470005026 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 660470005027 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470005028 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470005029 DNA binding site [nucleotide binding] 660470005030 domain linker motif; other site 660470005031 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470005032 dimerization interface [polypeptide binding]; other site 660470005033 ligand binding site [chemical binding]; other site 660470005034 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 660470005035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470005036 DNA-binding site [nucleotide binding]; DNA binding site 660470005037 UTRA domain; Region: UTRA; pfam07702 660470005038 BtpA family; Region: BtpA; cl00440 660470005039 BtpA family; Region: BtpA; cl00440 660470005040 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470005041 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 660470005042 substrate binding site [chemical binding]; other site 660470005043 ATP binding site [chemical binding]; other site 660470005044 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 660470005045 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 660470005046 ligand binding site [chemical binding]; other site 660470005047 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 660470005048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470005049 Walker A/P-loop; other site 660470005050 ATP binding site [chemical binding]; other site 660470005051 Q-loop/lid; other site 660470005052 ABC transporter signature motif; other site 660470005053 Walker B; other site 660470005054 D-loop; other site 660470005055 H-loop/switch region; other site 660470005056 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470005057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470005058 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470005059 TM-ABC transporter signature motif; other site 660470005060 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470005061 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470005062 TM-ABC transporter signature motif; other site 660470005063 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005064 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005065 putative active site [active] 660470005066 putative NTP binding site [chemical binding]; other site 660470005067 putative nucleic acid binding site [nucleotide binding]; other site 660470005068 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005069 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; cl17774 660470005070 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 660470005071 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; cd01610 660470005072 active site 660470005073 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 660470005074 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 660470005075 B12 binding site [chemical binding]; other site 660470005076 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470005077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470005078 metal binding site [ion binding]; metal-binding site 660470005079 active site 660470005080 I-site; other site 660470005081 Fic family protein [Function unknown]; Region: COG3177 660470005082 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 660470005083 Fic/DOC family; Region: Fic; pfam02661 660470005084 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005085 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005086 putative active site [active] 660470005087 putative NTP binding site [chemical binding]; other site 660470005088 putative nucleic acid binding site [nucleotide binding]; other site 660470005089 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005090 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005091 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005092 putative active site [active] 660470005093 putative NTP binding site [chemical binding]; other site 660470005094 putative nucleic acid binding site [nucleotide binding]; other site 660470005095 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005096 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 660470005097 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 660470005098 Alkaline phosphatase homologues; Region: alkPPc; smart00098 660470005099 active site 660470005100 dimer interface [polypeptide binding]; other site 660470005101 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 660470005102 YibE/F-like protein; Region: YibE_F; pfam07907 660470005103 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 660470005104 active site 660470005105 metal binding site [ion binding]; metal-binding site 660470005106 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 660470005107 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 660470005108 FtsX-like permease family; Region: FtsX; pfam02687 660470005109 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 660470005110 FtsX-like permease family; Region: FtsX; pfam02687 660470005111 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470005112 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 660470005113 Walker A/P-loop; other site 660470005114 ATP binding site [chemical binding]; other site 660470005115 Q-loop/lid; other site 660470005116 ABC transporter signature motif; other site 660470005117 Walker B; other site 660470005118 D-loop; other site 660470005119 H-loop/switch region; other site 660470005120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470005121 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 660470005122 dimer interface [polypeptide binding]; other site 660470005123 phosphorylation site [posttranslational modification] 660470005124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470005125 ATP binding site [chemical binding]; other site 660470005126 Mg2+ binding site [ion binding]; other site 660470005127 G-X-G motif; other site 660470005128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470005129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470005130 active site 660470005131 phosphorylation site [posttranslational modification] 660470005132 intermolecular recognition site; other site 660470005133 dimerization interface [polypeptide binding]; other site 660470005134 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 660470005135 DNA binding site [nucleotide binding] 660470005136 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470005137 MULE transposase domain; Region: MULE; pfam10551 660470005138 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 660470005139 Sulfatase; Region: Sulfatase; pfam00884 660470005140 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 660470005141 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 660470005142 FeS/SAM binding site; other site 660470005143 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 660470005144 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 660470005145 MarR family; Region: MarR; pfam01047 660470005146 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 660470005147 dimerization interface [polypeptide binding]; other site 660470005148 putative DNA binding site [nucleotide binding]; other site 660470005149 putative Zn2+ binding site [ion binding]; other site 660470005150 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470005151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470005152 Walker A/P-loop; other site 660470005153 ATP binding site [chemical binding]; other site 660470005154 Q-loop/lid; other site 660470005155 ABC transporter signature motif; other site 660470005156 Walker B; other site 660470005157 D-loop; other site 660470005158 H-loop/switch region; other site 660470005159 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 660470005160 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 660470005161 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470005162 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470005163 TPR motif; other site 660470005164 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470005165 binding surface 660470005166 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470005167 binding surface 660470005168 TPR motif; other site 660470005169 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470005170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470005171 metal binding site [ion binding]; metal-binding site 660470005172 active site 660470005173 I-site; other site 660470005174 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 660470005175 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005176 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005177 putative active site [active] 660470005178 putative NTP binding site [chemical binding]; other site 660470005179 putative nucleic acid binding site [nucleotide binding]; other site 660470005180 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005181 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 660470005182 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470005183 Coenzyme A binding pocket [chemical binding]; other site 660470005184 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 660470005185 classical (c) SDRs; Region: SDR_c; cd05233 660470005186 NAD(P) binding site [chemical binding]; other site 660470005187 active site 660470005188 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 660470005189 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 660470005190 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470005191 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 660470005192 dimer interface [polypeptide binding]; other site 660470005193 conserved gate region; other site 660470005194 putative PBP binding loops; other site 660470005195 ABC-ATPase subunit interface; other site 660470005196 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 660470005197 dimer interface [polypeptide binding]; other site 660470005198 putative PBP binding loops; other site 660470005199 ABC-ATPase subunit interface; other site 660470005200 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470005201 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470005202 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470005203 MULE transposase domain; Region: MULE; pfam10551 660470005204 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005205 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005206 putative active site [active] 660470005207 putative NTP binding site [chemical binding]; other site 660470005208 putative nucleic acid binding site [nucleotide binding]; other site 660470005209 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005210 Domain of unknown function (DUF377); Region: DUF377; pfam04041 660470005211 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 660470005212 active site 660470005213 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470005214 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470005215 DNA binding site [nucleotide binding] 660470005216 domain linker motif; other site 660470005217 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470005218 dimerization interface [polypeptide binding]; other site 660470005219 ligand binding site [chemical binding]; other site 660470005220 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 660470005221 beta-galactosidase; Region: BGL; TIGR03356 660470005222 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 660470005223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470005224 Walker A/P-loop; other site 660470005225 ATP binding site [chemical binding]; other site 660470005226 Q-loop/lid; other site 660470005227 ABC transporter signature motif; other site 660470005228 Walker B; other site 660470005229 D-loop; other site 660470005230 H-loop/switch region; other site 660470005231 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 660470005232 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470005233 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470005234 Walker A/P-loop; other site 660470005235 ATP binding site [chemical binding]; other site 660470005236 Q-loop/lid; other site 660470005237 ABC transporter signature motif; other site 660470005238 Walker B; other site 660470005239 D-loop; other site 660470005240 H-loop/switch region; other site 660470005241 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470005242 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470005243 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 660470005244 dimer interface [polypeptide binding]; other site 660470005245 conserved gate region; other site 660470005246 putative PBP binding loops; other site 660470005247 ABC-ATPase subunit interface; other site 660470005248 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470005249 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 660470005250 dimer interface [polypeptide binding]; other site 660470005251 conserved gate region; other site 660470005252 putative PBP binding loops; other site 660470005253 ABC-ATPase subunit interface; other site 660470005254 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 660470005255 substrate binding site [chemical binding]; other site 660470005256 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470005257 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 660470005258 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470005259 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 660470005260 dimer interface [polypeptide binding]; other site 660470005261 conserved gate region; other site 660470005262 putative PBP binding loops; other site 660470005263 ABC-ATPase subunit interface; other site 660470005264 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 660470005265 dimer interface [polypeptide binding]; other site 660470005266 conserved gate region; other site 660470005267 putative PBP binding loops; other site 660470005268 ABC-ATPase subunit interface; other site 660470005269 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470005270 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 660470005271 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 660470005272 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470005273 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470005274 DNA binding site [nucleotide binding] 660470005275 domain linker motif; other site 660470005276 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470005277 dimerization interface [polypeptide binding]; other site 660470005278 ligand binding site [chemical binding]; other site 660470005279 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 660470005280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470005281 DNA-binding site [nucleotide binding]; DNA binding site 660470005282 UTRA domain; Region: UTRA; pfam07702 660470005283 BtpA family; Region: BtpA; cl00440 660470005284 BtpA family; Region: BtpA; cl00440 660470005285 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470005286 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 660470005287 substrate binding site [chemical binding]; other site 660470005288 ATP binding site [chemical binding]; other site 660470005289 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 660470005290 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 660470005291 ligand binding site [chemical binding]; other site 660470005292 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 660470005293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470005294 Walker A/P-loop; other site 660470005295 ATP binding site [chemical binding]; other site 660470005296 Q-loop/lid; other site 660470005297 ABC transporter signature motif; other site 660470005298 Walker B; other site 660470005299 D-loop; other site 660470005300 H-loop/switch region; other site 660470005301 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470005302 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470005303 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470005304 TM-ABC transporter signature motif; other site 660470005305 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470005306 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 660470005307 TM-ABC transporter signature motif; other site 660470005308 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005309 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005310 putative active site [active] 660470005311 putative NTP binding site [chemical binding]; other site 660470005312 putative nucleic acid binding site [nucleotide binding]; other site 660470005313 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005314 Fic family protein [Function unknown]; Region: COG3177 660470005315 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 660470005316 Fic/DOC family; Region: Fic; pfam02661 660470005317 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 660470005318 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 660470005319 Alkaline phosphatase homologues; Region: alkPPc; smart00098 660470005320 active site 660470005321 dimer interface [polypeptide binding]; other site 660470005322 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 660470005323 YibE/F-like protein; Region: YibE_F; pfam07907 660470005324 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 660470005325 active site 660470005326 metal binding site [ion binding]; metal-binding site 660470005327 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 660470005328 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 660470005329 FtsX-like permease family; Region: FtsX; pfam02687 660470005330 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 660470005331 FtsX-like permease family; Region: FtsX; pfam02687 660470005332 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470005333 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 660470005334 Walker A/P-loop; other site 660470005335 ATP binding site [chemical binding]; other site 660470005336 Q-loop/lid; other site 660470005337 ABC transporter signature motif; other site 660470005338 Walker B; other site 660470005339 D-loop; other site 660470005340 H-loop/switch region; other site 660470005341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 660470005342 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 660470005343 dimer interface [polypeptide binding]; other site 660470005344 phosphorylation site [posttranslational modification] 660470005345 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470005346 ATP binding site [chemical binding]; other site 660470005347 Mg2+ binding site [ion binding]; other site 660470005348 G-X-G motif; other site 660470005349 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470005350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470005351 active site 660470005352 phosphorylation site [posttranslational modification] 660470005353 intermolecular recognition site; other site 660470005354 dimerization interface [polypeptide binding]; other site 660470005355 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 660470005356 DNA binding site [nucleotide binding] 660470005357 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470005358 MULE transposase domain; Region: MULE; pfam10551 660470005359 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 660470005360 Sulfatase; Region: Sulfatase; pfam00884 660470005361 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 660470005362 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 660470005363 FeS/SAM binding site; other site 660470005364 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 660470005365 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 660470005366 MarR family; Region: MarR; pfam01047 660470005367 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 660470005368 dimerization interface [polypeptide binding]; other site 660470005369 putative DNA binding site [nucleotide binding]; other site 660470005370 putative Zn2+ binding site [ion binding]; other site 660470005371 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470005372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470005373 Walker A/P-loop; other site 660470005374 ATP binding site [chemical binding]; other site 660470005375 Q-loop/lid; other site 660470005376 ABC transporter signature motif; other site 660470005377 Walker B; other site 660470005378 D-loop; other site 660470005379 H-loop/switch region; other site 660470005380 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 660470005381 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 660470005382 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470005383 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470005384 TPR motif; other site 660470005385 Tetratricopeptide repeat; Region: TPR_12; pfam13424 660470005386 binding surface 660470005387 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470005388 binding surface 660470005389 TPR motif; other site 660470005390 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470005391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470005392 metal binding site [ion binding]; metal-binding site 660470005393 active site 660470005394 I-site; other site 660470005395 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 660470005396 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005397 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005398 putative active site [active] 660470005399 putative NTP binding site [chemical binding]; other site 660470005400 putative nucleic acid binding site [nucleotide binding]; other site 660470005401 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005402 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 660470005403 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470005404 Coenzyme A binding pocket [chemical binding]; other site 660470005405 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 660470005406 classical (c) SDRs; Region: SDR_c; cd05233 660470005407 NAD(P) binding site [chemical binding]; other site 660470005408 active site 660470005409 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 660470005410 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 660470005411 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470005412 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 660470005413 dimer interface [polypeptide binding]; other site 660470005414 conserved gate region; other site 660470005415 putative PBP binding loops; other site 660470005416 ABC-ATPase subunit interface; other site 660470005417 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 660470005418 dimer interface [polypeptide binding]; other site 660470005419 putative PBP binding loops; other site 660470005420 ABC-ATPase subunit interface; other site 660470005421 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470005422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470005423 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005424 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005425 putative active site [active] 660470005426 putative NTP binding site [chemical binding]; other site 660470005427 putative nucleic acid binding site [nucleotide binding]; other site 660470005428 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005429 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470005430 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470005431 putative active site [active] 660470005432 putative NTP binding site [chemical binding]; other site 660470005433 putative nucleic acid binding site [nucleotide binding]; other site 660470005434 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470005435 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470005436 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 660470005437 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 660470005438 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 660470005439 active site 660470005440 intersubunit interface [polypeptide binding]; other site 660470005441 catalytic residue [active] 660470005442 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 660470005443 N- and C-terminal domain interface [polypeptide binding]; other site 660470005444 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 660470005445 active site 660470005446 putative catalytic site [active] 660470005447 metal binding site [ion binding]; metal-binding site 660470005448 ATP binding site [chemical binding]; other site 660470005449 carbohydrate binding site [chemical binding]; other site 660470005450 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470005451 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 660470005452 putative substrate binding site [chemical binding]; other site 660470005453 putative ATP binding site [chemical binding]; other site 660470005454 Class I aldolases; Region: Aldolase_Class_I; cl17187 660470005455 catalytic residue [active] 660470005456 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 660470005457 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 660470005458 hexamer (dimer of trimers) interface [polypeptide binding]; other site 660470005459 substrate binding site [chemical binding]; other site 660470005460 trimer interface [polypeptide binding]; other site 660470005461 Mn binding site [ion binding]; other site 660470005462 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470005463 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470005464 DNA binding site [nucleotide binding] 660470005465 domain linker motif; other site 660470005466 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470005467 dimerization interface [polypeptide binding]; other site 660470005468 ligand binding site [chemical binding]; other site 660470005469 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470005470 N-acetylmannosamine kinase; Provisional; Region: PRK05082 660470005471 nucleotide binding site [chemical binding]; other site 660470005472 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 660470005473 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 660470005474 active site 660470005475 intersubunit interface [polypeptide binding]; other site 660470005476 catalytic residue [active] 660470005477 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 660470005478 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 660470005479 S-adenosylmethionine binding site [chemical binding]; other site 660470005480 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 660470005481 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 660470005482 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 660470005483 hypothetical protein; Provisional; Region: PRK08378 660470005484 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 660470005485 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 660470005486 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 660470005487 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 660470005488 NADH dehydrogenase subunit M; Validated; Region: PRK08668 660470005489 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 660470005490 Cytochrome c oxidase subunit IV. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_IV; cl02792 660470005491 putative ATP/ADP binding site [chemical binding]; other site 660470005492 Subunit IV/VIIb interface [polypeptide binding]; other site 660470005493 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 660470005494 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 660470005495 NADH dehydrogenase subunit B; Validated; Region: PRK06411 660470005496 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 660470005497 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 660470005498 NADH dehydrogenase subunit D; Validated; Region: PRK06075 660470005499 putative oxidoreductase; Provisional; Region: PRK13984 660470005500 4Fe-4S binding domain; Region: Fer4; pfam00037 660470005501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 660470005502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470005503 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 660470005504 diiron binding motif [ion binding]; other site 660470005505 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 660470005506 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 660470005507 catalytic triad [active] 660470005508 metal binding site [ion binding]; metal-binding site 660470005509 conserved cis-peptide bond; other site 660470005510 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 660470005511 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 660470005512 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 660470005513 GTP/Mg2+ binding site [chemical binding]; other site 660470005514 G4 box; other site 660470005515 G5 box; other site 660470005516 G1 box; other site 660470005517 Switch I region; other site 660470005518 G2 box; other site 660470005519 G3 box; other site 660470005520 Switch II region; other site 660470005521 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 660470005522 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 660470005523 FeS/SAM binding site; other site 660470005524 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 660470005525 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470005526 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 660470005527 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 660470005528 catalytic core [active] 660470005529 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 660470005530 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 660470005531 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 660470005532 NADH(P)-binding; Region: NAD_binding_10; pfam13460 660470005533 NAD binding site [chemical binding]; other site 660470005534 substrate binding site [chemical binding]; other site 660470005535 putative active site [active] 660470005536 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 660470005537 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 660470005538 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 660470005539 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 660470005540 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 660470005541 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 660470005542 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 660470005543 hinge; other site 660470005544 active site 660470005545 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 660470005546 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 660470005547 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 660470005548 shikimate binding site; other site 660470005549 NAD(P) binding site [chemical binding]; other site 660470005550 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 660470005551 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 660470005552 Tetramer interface [polypeptide binding]; other site 660470005553 active site 660470005554 FMN-binding site [chemical binding]; other site 660470005555 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK13951 660470005556 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 660470005557 ADP binding site [chemical binding]; other site 660470005558 magnesium binding site [ion binding]; other site 660470005559 putative shikimate binding site; other site 660470005560 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 660470005561 active site 660470005562 NAD binding site [chemical binding]; other site 660470005563 metal binding site [ion binding]; metal-binding site 660470005564 Dehydroquinase class II; Region: DHquinase_II; pfam01220 660470005565 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 660470005566 trimer interface [polypeptide binding]; other site 660470005567 active site 660470005568 dimer interface [polypeptide binding]; other site 660470005569 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 660470005570 homotrimer interaction site [polypeptide binding]; other site 660470005571 active site 660470005572 Prephenate dehydrogenase; Region: PDH; pfam02153 660470005573 prephenate dehydrogenase; Validated; Region: PRK08507 660470005574 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 660470005575 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 660470005576 catalytic residue [active] 660470005577 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 660470005578 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 660470005579 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 660470005580 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 660470005581 RNA binding site [nucleotide binding]; other site 660470005582 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 660470005583 active site 660470005584 domain interfaces; other site 660470005585 Cupin domain; Region: Cupin_2; cl17218 660470005586 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470005587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470005588 Zn2+ binding site [ion binding]; other site 660470005589 Mg2+ binding site [ion binding]; other site 660470005590 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 660470005591 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 660470005592 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 660470005593 active site 660470005594 dimer interface [polypeptide binding]; other site 660470005595 catalytic nucleophile [active] 660470005596 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 660470005597 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 660470005598 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 660470005599 putative active site [active] 660470005600 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 660470005601 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 660470005602 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 660470005603 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 660470005604 dimer interface [polypeptide binding]; other site 660470005605 conserved gate region; other site 660470005606 putative PBP binding loops; other site 660470005607 ABC-ATPase subunit interface; other site 660470005608 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 660470005609 dimer interface [polypeptide binding]; other site 660470005610 conserved gate region; other site 660470005611 putative PBP binding loops; other site 660470005612 ABC-ATPase subunit interface; other site 660470005613 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 660470005614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470005615 Walker A/P-loop; other site 660470005616 ATP binding site [chemical binding]; other site 660470005617 Q-loop/lid; other site 660470005618 ABC transporter signature motif; other site 660470005619 Walker B; other site 660470005620 D-loop; other site 660470005621 H-loop/switch region; other site 660470005622 TOBE domain; Region: TOBE_2; pfam08402 660470005623 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 660470005624 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470005625 PAS fold; Region: PAS_3; pfam08447 660470005626 putative active site [active] 660470005627 heme pocket [chemical binding]; other site 660470005628 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470005629 GAF domain; Region: GAF; pfam01590 660470005630 GAF domain; Region: GAF_3; pfam13492 660470005631 PAS domain S-box; Region: sensory_box; TIGR00229 660470005632 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470005633 putative active site [active] 660470005634 heme pocket [chemical binding]; other site 660470005635 PAS domain S-box; Region: sensory_box; TIGR00229 660470005636 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470005637 putative active site [active] 660470005638 heme pocket [chemical binding]; other site 660470005639 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470005640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470005641 Zn2+ binding site [ion binding]; other site 660470005642 Mg2+ binding site [ion binding]; other site 660470005643 4Fe-4S binding domain; Region: Fer4_5; pfam12801 660470005644 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 660470005645 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 660470005646 Predicted acetyltransferase [General function prediction only]; Region: COG3393 660470005647 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470005648 Coenzyme A binding pocket [chemical binding]; other site 660470005649 SnoaL-like domain; Region: SnoaL_3; pfam13474 660470005650 SnoaL-like domain; Region: SnoaL_2; pfam12680 660470005651 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 660470005652 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470005653 putative substrate translocation pore; other site 660470005654 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 660470005655 putative homodimer interface [polypeptide binding]; other site 660470005656 putative homotetramer interface [polypeptide binding]; other site 660470005657 putative allosteric switch controlling residues; other site 660470005658 putative metal binding site [ion binding]; other site 660470005659 putative homodimer-homodimer interface [polypeptide binding]; other site 660470005660 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 660470005661 metal-binding site [ion binding] 660470005662 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 660470005663 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 660470005664 metal-binding site [ion binding] 660470005665 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 660470005666 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 660470005667 metal-binding site [ion binding] 660470005668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 660470005669 Soluble P-type ATPase [General function prediction only]; Region: COG4087 660470005670 Predicted membrane protein [Function unknown]; Region: COG3462 660470005671 Short C-terminal domain; Region: SHOCT; pfam09851 660470005672 intracellular protease, PfpI family; Region: PfpI; TIGR01382 660470005673 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 660470005674 proposed catalytic triad [active] 660470005675 conserved cys residue [active] 660470005676 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470005677 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 660470005678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470005679 Zn2+ binding site [ion binding]; other site 660470005680 Mg2+ binding site [ion binding]; other site 660470005681 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 660470005682 synthetase active site [active] 660470005683 NTP binding site [chemical binding]; other site 660470005684 metal binding site [ion binding]; metal-binding site 660470005685 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 660470005686 ACT domain; Region: ACT_4; pfam13291 660470005687 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 660470005688 dimerization interface [polypeptide binding]; other site 660470005689 putative tRNAtyr binding site [nucleotide binding]; other site 660470005690 putative active site [active] 660470005691 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 660470005692 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 660470005693 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 660470005694 Walker A/P-loop; other site 660470005695 ATP binding site [chemical binding]; other site 660470005696 Q-loop/lid; other site 660470005697 ABC transporter signature motif; other site 660470005698 Walker B; other site 660470005699 D-loop; other site 660470005700 H-loop/switch region; other site 660470005701 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 660470005702 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 660470005703 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 660470005704 HIGH motif; other site 660470005705 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 660470005706 active site 660470005707 KMSKS motif; other site 660470005708 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 660470005709 HEAT repeats; Region: HEAT_2; pfam13646 660470005710 HEAT repeats; Region: HEAT_2; pfam13646 660470005711 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 660470005712 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 660470005713 active site 660470005714 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 660470005715 dimerization interface [polypeptide binding]; other site 660470005716 putative DNA binding site [nucleotide binding]; other site 660470005717 putative Zn2+ binding site [ion binding]; other site 660470005718 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 660470005719 dimerization interface [polypeptide binding]; other site 660470005720 putative DNA binding site [nucleotide binding]; other site 660470005721 putative Zn2+ binding site [ion binding]; other site 660470005722 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 660470005723 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548; Region: HAD-SF-IA-hyp1 660470005724 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 660470005725 motif II; other site 660470005726 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 660470005727 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 660470005728 ligand binding site [chemical binding]; other site 660470005729 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 660470005730 putative switch regulator; other site 660470005731 non-specific DNA interactions [nucleotide binding]; other site 660470005732 DNA binding site [nucleotide binding] 660470005733 sequence specific DNA binding site [nucleotide binding]; other site 660470005734 putative cAMP binding site [chemical binding]; other site 660470005735 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 660470005736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470005737 Coenzyme A binding pocket [chemical binding]; other site 660470005738 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 660470005739 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 660470005740 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 660470005741 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 660470005742 Walker A/P-loop; other site 660470005743 ATP binding site [chemical binding]; other site 660470005744 Q-loop/lid; other site 660470005745 ABC transporter signature motif; other site 660470005746 Walker B; other site 660470005747 D-loop; other site 660470005748 H-loop/switch region; other site 660470005749 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 660470005750 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 660470005751 ATP binding site [chemical binding]; other site 660470005752 substrate interface [chemical binding]; other site 660470005753 Predicted GTPase [General function prediction only]; Region: COG2403 660470005754 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 660470005755 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 660470005756 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 660470005757 putative substrate binding site [chemical binding]; other site 660470005758 putative ATP binding site [chemical binding]; other site 660470005759 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 660470005760 RNA methyltransferase, RsmE family; Region: TIGR00046 660470005761 seryl-tRNA synthetase; Provisional; Region: PRK05431 660470005762 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 660470005763 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 660470005764 dimer interface [polypeptide binding]; other site 660470005765 active site 660470005766 motif 1; other site 660470005767 motif 2; other site 660470005768 motif 3; other site 660470005769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 660470005770 MarR family; Region: MarR_2; pfam12802 660470005771 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 660470005772 RNA/DNA hybrid binding site [nucleotide binding]; other site 660470005773 active site 660470005774 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 660470005775 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 660470005776 homodimer interface [polypeptide binding]; other site 660470005777 metal binding site [ion binding]; metal-binding site 660470005778 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 660470005779 homodimer interface [polypeptide binding]; other site 660470005780 active site 660470005781 putative chemical substrate binding site [chemical binding]; other site 660470005782 metal binding site [ion binding]; metal-binding site 660470005783 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 660470005784 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 660470005785 Domain of unknown function DUF59; Region: DUF59; cl00941 660470005786 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 660470005787 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 660470005788 S-adenosylmethionine binding site [chemical binding]; other site 660470005789 NAD-dependent deacetylase; Provisional; Region: PRK14138 660470005790 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 660470005791 DNA repair protein RecN; Region: recN; TIGR00634 660470005792 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 660470005793 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 660470005794 active site 660470005795 HIGH motif; other site 660470005796 dimer interface [polypeptide binding]; other site 660470005797 KMSKS motif; other site 660470005798 ScpA/B protein; Region: ScpA_ScpB; cl00598 660470005799 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 660470005800 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 660470005801 pseudouridine synthase; Region: TIGR00093 660470005802 active site 660470005803 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 660470005804 active site 660470005805 Domain of unknown function (DUF377); Region: DUF377; pfam04041 660470005806 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 660470005807 active site 660470005808 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470005809 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 660470005810 dimer interface [polypeptide binding]; other site 660470005811 conserved gate region; other site 660470005812 putative PBP binding loops; other site 660470005813 ABC-ATPase subunit interface; other site 660470005814 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470005815 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 660470005816 putative PBP binding loops; other site 660470005817 dimer interface [polypeptide binding]; other site 660470005818 ABC-ATPase subunit interface; other site 660470005819 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470005820 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470005821 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470005822 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470005823 DNA binding site [nucleotide binding] 660470005824 domain linker motif; other site 660470005825 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470005826 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 660470005827 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 660470005828 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 660470005829 homodimer interface [polypeptide binding]; other site 660470005830 oligonucleotide binding site [chemical binding]; other site 660470005831 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 660470005832 30S subunit binding site; other site 660470005833 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 660470005834 nudix motif; other site 660470005835 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 660470005836 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 660470005837 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 660470005838 Walker A motif; other site 660470005839 ATP binding site [chemical binding]; other site 660470005840 Walker B motif; other site 660470005841 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 660470005842 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 660470005843 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 660470005844 non-specific DNA binding site [nucleotide binding]; other site 660470005845 salt bridge; other site 660470005846 sequence-specific DNA binding site [nucleotide binding]; other site 660470005847 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 660470005848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 660470005849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470005850 Coenzyme A binding pocket [chemical binding]; other site 660470005851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470005852 Coenzyme A binding pocket [chemical binding]; other site 660470005853 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 660470005854 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470005855 putative substrate translocation pore; other site 660470005856 hypothetical protein; Provisional; Region: PRK09272 660470005857 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 660470005858 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 660470005859 active site 660470005860 metal binding site [ion binding]; metal-binding site 660470005861 homotetramer interface [polypeptide binding]; other site 660470005862 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 660470005863 dimerization interface [polypeptide binding]; other site 660470005864 putative DNA binding site [nucleotide binding]; other site 660470005865 putative Zn2+ binding site [ion binding]; other site 660470005866 Predicted permease; Region: DUF318; cl17795 660470005867 Predicted permease; Region: DUF318; pfam03773 660470005868 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 660470005869 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 660470005870 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 660470005871 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470005872 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470005873 Staphylococcal nuclease homologues; Region: SNc; smart00318 660470005874 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 660470005875 Catalytic site; other site 660470005876 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 660470005877 metal binding site 2 [ion binding]; metal-binding site 660470005878 putative DNA binding helix; other site 660470005879 metal binding site 1 [ion binding]; metal-binding site 660470005880 dimer interface [polypeptide binding]; other site 660470005881 structural Zn2+ binding site [ion binding]; other site 660470005882 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 660470005883 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 660470005884 intersubunit interface [polypeptide binding]; other site 660470005885 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 660470005886 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 660470005887 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 660470005888 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 660470005889 ABC-ATPase subunit interface; other site 660470005890 dimer interface [polypeptide binding]; other site 660470005891 putative PBP binding regions; other site 660470005892 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 660470005893 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 660470005894 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 660470005895 putative active site [active] 660470005896 metal binding site [ion binding]; metal-binding site 660470005897 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470005898 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470005899 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 660470005900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470005901 Walker A/P-loop; other site 660470005902 ATP binding site [chemical binding]; other site 660470005903 Q-loop/lid; other site 660470005904 ABC transporter signature motif; other site 660470005905 Walker B; other site 660470005906 D-loop; other site 660470005907 H-loop/switch region; other site 660470005908 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470005909 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470005910 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470005911 Walker A/P-loop; other site 660470005912 ATP binding site [chemical binding]; other site 660470005913 Q-loop/lid; other site 660470005914 ABC transporter signature motif; other site 660470005915 Walker B; other site 660470005916 D-loop; other site 660470005917 H-loop/switch region; other site 660470005918 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 660470005919 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470005920 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 660470005921 dimer interface [polypeptide binding]; other site 660470005922 conserved gate region; other site 660470005923 putative PBP binding loops; other site 660470005924 ABC-ATPase subunit interface; other site 660470005925 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470005926 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 660470005927 dimer interface [polypeptide binding]; other site 660470005928 conserved gate region; other site 660470005929 putative PBP binding loops; other site 660470005930 ABC-ATPase subunit interface; other site 660470005931 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 660470005932 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 660470005933 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 660470005934 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 660470005935 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 660470005936 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 660470005937 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 660470005938 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470005939 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 660470005940 Peptidase family M23; Region: Peptidase_M23; pfam01551 660470005941 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 660470005942 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 660470005943 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 660470005944 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 660470005945 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 660470005946 dimer interface [polypeptide binding]; other site 660470005947 PYR/PP interface [polypeptide binding]; other site 660470005948 TPP binding site [chemical binding]; other site 660470005949 substrate binding site [chemical binding]; other site 660470005950 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 660470005951 Domain of unknown function; Region: EKR; pfam10371 660470005952 4Fe-4S binding domain; Region: Fer4_6; pfam12837 660470005953 4Fe-4S binding domain; Region: Fer4; pfam00037 660470005954 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 660470005955 TPP-binding site [chemical binding]; other site 660470005956 dimer interface [polypeptide binding]; other site 660470005957 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 660470005958 diiron binding motif [ion binding]; other site 660470005959 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 660470005960 active site 660470005961 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 660470005962 MgtC family; Region: MgtC; pfam02308 660470005963 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470005964 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 660470005965 nucleophile elbow; other site 660470005966 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 660470005967 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 660470005968 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470005969 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 660470005970 Peptidase family C69; Region: Peptidase_C69; cl17793 660470005971 Peptidase family C69; Region: Peptidase_C69; cl17793 660470005972 H(2)-dependent methylenetetrahydromethanopterin dehydrogenase-related protein; Provisional; Region: PRK12557 660470005973 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 660470005974 Peptidase family C69; Region: Peptidase_C69; cl17793 660470005975 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 660470005976 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 660470005977 active site 660470005978 Zn binding site [ion binding]; other site 660470005979 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 660470005980 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 660470005981 motif II; other site 660470005982 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 660470005983 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 660470005984 motif II; other site 660470005985 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 660470005986 dimer interface [polypeptide binding]; other site 660470005987 substrate binding site [chemical binding]; other site 660470005988 metal binding sites [ion binding]; metal-binding site 660470005989 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 660470005990 active site 660470005991 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 660470005992 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 660470005993 active site 660470005994 HIGH motif; other site 660470005995 nucleotide binding site [chemical binding]; other site 660470005996 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 660470005997 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 660470005998 active site 660470005999 KMSKS motif; other site 660470006000 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 660470006001 tRNA binding surface [nucleotide binding]; other site 660470006002 anticodon binding site; other site 660470006003 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 660470006004 S-adenosylmethionine binding site [chemical binding]; other site 660470006005 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 660470006006 hypothetical protein; Provisional; Region: PRK04164 660470006007 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 660470006008 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470006009 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 660470006010 Walker A/P-loop; other site 660470006011 ATP binding site [chemical binding]; other site 660470006012 Q-loop/lid; other site 660470006013 ABC transporter signature motif; other site 660470006014 Walker B; other site 660470006015 D-loop; other site 660470006016 H-loop/switch region; other site 660470006017 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 660470006018 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 660470006019 B12 binding domain; Region: B12-binding_2; pfam02607 660470006020 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 660470006021 B12 binding domain; Region: B12-binding; pfam02310 660470006022 B12 binding site [chemical binding]; other site 660470006023 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 660470006024 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 660470006025 active site 660470006026 catalytic tetrad [active] 660470006027 peroxiredoxin; Provisional; Region: PRK13189 660470006028 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 660470006029 dimer interface [polypeptide binding]; other site 660470006030 decamer (pentamer of dimers) interface [polypeptide binding]; other site 660470006031 catalytic triad [active] 660470006032 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470006033 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470006034 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470006035 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 660470006036 dimer interface [polypeptide binding]; other site 660470006037 conserved gate region; other site 660470006038 putative PBP binding loops; other site 660470006039 ABC-ATPase subunit interface; other site 660470006040 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470006041 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 660470006042 dimer interface [polypeptide binding]; other site 660470006043 conserved gate region; other site 660470006044 putative PBP binding loops; other site 660470006045 ABC-ATPase subunit interface; other site 660470006046 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 660470006047 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 660470006048 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 660470006049 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 660470006050 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 660470006051 putative active site [active] 660470006052 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 660470006053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470006054 Zn2+ binding site [ion binding]; other site 660470006055 Mg2+ binding site [ion binding]; other site 660470006056 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 660470006057 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 660470006058 dimer interface [polypeptide binding]; other site 660470006059 phosphorylation site [posttranslational modification] 660470006060 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470006061 ATP binding site [chemical binding]; other site 660470006062 Mg2+ binding site [ion binding]; other site 660470006063 G-X-G motif; other site 660470006064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470006065 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 660470006066 active site 660470006067 phosphorylation site [posttranslational modification] 660470006068 intermolecular recognition site; other site 660470006069 dimerization interface [polypeptide binding]; other site 660470006070 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 660470006071 DNA binding site [nucleotide binding] 660470006072 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 660470006073 PhoU domain; Region: PhoU; pfam01895 660470006074 PhoU domain; Region: PhoU; pfam01895 660470006075 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 660470006076 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 660470006077 Walker A/P-loop; other site 660470006078 ATP binding site [chemical binding]; other site 660470006079 Q-loop/lid; other site 660470006080 ABC transporter signature motif; other site 660470006081 Walker B; other site 660470006082 D-loop; other site 660470006083 H-loop/switch region; other site 660470006084 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 660470006085 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 660470006086 dimer interface [polypeptide binding]; other site 660470006087 conserved gate region; other site 660470006088 putative PBP binding loops; other site 660470006089 ABC-ATPase subunit interface; other site 660470006090 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 660470006091 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 660470006092 dimer interface [polypeptide binding]; other site 660470006093 conserved gate region; other site 660470006094 putative PBP binding loops; other site 660470006095 ABC-ATPase subunit interface; other site 660470006096 PBP superfamily domain; Region: PBP_like_2; cl17296 660470006097 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 660470006098 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 660470006099 active site 660470006100 metal binding site [ion binding]; metal-binding site 660470006101 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 660470006102 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 660470006103 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 660470006104 Cl binding site [ion binding]; other site 660470006105 oligomer interface [polypeptide binding]; other site 660470006106 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 660470006107 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 660470006108 Mg++ binding site [ion binding]; other site 660470006109 putative catalytic motif [active] 660470006110 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 660470006111 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 660470006112 inhibitor-cofactor binding pocket; inhibition site 660470006113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006114 catalytic residue [active] 660470006115 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 660470006116 CoA binding domain; Region: CoA_binding; cl17356 660470006117 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 660470006118 NAD(P) binding site [chemical binding]; other site 660470006119 homodimer interface [polypeptide binding]; other site 660470006120 substrate binding site [chemical binding]; other site 660470006121 active site 660470006122 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 660470006123 Sporulation and spore germination; Region: Germane; pfam10646 660470006124 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 660470006125 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 660470006126 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 660470006127 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 660470006128 catalytic triad [active] 660470006129 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 660470006130 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470006131 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 660470006132 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 660470006133 active site 660470006134 dimer interface [polypeptide binding]; other site 660470006135 Methyltransferase domain; Region: Methyltransf_23; pfam13489 660470006136 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 660470006137 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 660470006138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006139 homodimer interface [polypeptide binding]; other site 660470006140 catalytic residue [active] 660470006141 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 660470006142 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 660470006143 putative ADP-binding pocket [chemical binding]; other site 660470006144 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470006145 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 660470006146 substrate binding site [chemical binding]; other site 660470006147 ATP binding site [chemical binding]; other site 660470006148 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 660470006149 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 660470006150 active site 660470006151 Zn binding site [ion binding]; other site 660470006152 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 660470006153 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470006154 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 660470006155 substrate binding site [chemical binding]; other site 660470006156 ATP binding site [chemical binding]; other site 660470006157 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 660470006158 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 660470006159 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 660470006160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470006161 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 660470006162 Walker A/P-loop; other site 660470006163 ATP binding site [chemical binding]; other site 660470006164 Q-loop/lid; other site 660470006165 ABC transporter signature motif; other site 660470006166 Walker B; other site 660470006167 D-loop; other site 660470006168 H-loop/switch region; other site 660470006169 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 660470006170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470006171 Zn2+ binding site [ion binding]; other site 660470006172 Mg2+ binding site [ion binding]; other site 660470006173 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 660470006174 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 660470006175 beta-galactosidase; Region: BGL; TIGR03356 660470006176 EDD domain protein, DegV family; Region: DegV; TIGR00762 660470006177 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 660470006178 MFS/sugar transport protein; Region: MFS_2; pfam13347 660470006179 peptidase T; Region: peptidase-T; TIGR01882 660470006180 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 660470006181 metal binding site [ion binding]; metal-binding site 660470006182 dimer interface [polypeptide binding]; other site 660470006183 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_HprK; cl00270 660470006184 hypothetical protein; Provisional; Region: PRK06849 660470006185 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 660470006186 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 660470006187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470006188 Walker A/P-loop; other site 660470006189 ATP binding site [chemical binding]; other site 660470006190 Q-loop/lid; other site 660470006191 ABC transporter signature motif; other site 660470006192 Walker B; other site 660470006193 D-loop; other site 660470006194 H-loop/switch region; other site 660470006195 ABC transporter; Region: ABC_tran_2; pfam12848 660470006196 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 660470006197 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 660470006198 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 660470006199 Peptidase family M28; Region: Peptidase_M28; pfam04389 660470006200 metal binding site [ion binding]; metal-binding site 660470006201 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 660470006202 active site 660470006203 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 660470006204 non-heme iron binding site [ion binding]; other site 660470006205 dimer interface [polypeptide binding]; other site 660470006206 glyoxylate reductase; Reviewed; Region: PRK13243 660470006207 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 660470006208 dimerization interface [polypeptide binding]; other site 660470006209 ligand binding site [chemical binding]; other site 660470006210 NADP binding site [chemical binding]; other site 660470006211 catalytic site [active] 660470006212 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 660470006213 Clp amino terminal domain; Region: Clp_N; pfam02861 660470006214 Clp amino terminal domain; Region: Clp_N; pfam02861 660470006215 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 660470006216 Walker A motif; other site 660470006217 ATP binding site [chemical binding]; other site 660470006218 Walker B motif; other site 660470006219 arginine finger; other site 660470006220 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 660470006221 Walker A motif; other site 660470006222 ATP binding site [chemical binding]; other site 660470006223 Walker B motif; other site 660470006224 arginine finger; other site 660470006225 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 660470006226 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 660470006227 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 660470006228 putative dimer interface [polypeptide binding]; other site 660470006229 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 660470006230 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 660470006231 nucleotide binding site [chemical binding]; other site 660470006232 NEF interaction site [polypeptide binding]; other site 660470006233 SBD interface [polypeptide binding]; other site 660470006234 threonine synthase; Validated; Region: PRK06260 660470006235 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 660470006236 homodimer interface [polypeptide binding]; other site 660470006237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006238 catalytic residue [active] 660470006239 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 660470006240 active site 660470006241 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 660470006242 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 660470006243 PAS domain; Region: PAS_9; pfam13426 660470006244 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006245 putative active site [active] 660470006246 heme pocket [chemical binding]; other site 660470006247 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470006248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470006249 metal binding site [ion binding]; metal-binding site 660470006250 active site 660470006251 I-site; other site 660470006252 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470006253 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470006254 DNA binding site [nucleotide binding] 660470006255 domain linker motif; other site 660470006256 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470006257 dimerization interface [polypeptide binding]; other site 660470006258 ligand binding site [chemical binding]; other site 660470006259 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470006260 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470006261 Walker A/P-loop; other site 660470006262 ATP binding site [chemical binding]; other site 660470006263 Q-loop/lid; other site 660470006264 ABC transporter signature motif; other site 660470006265 Walker B; other site 660470006266 D-loop; other site 660470006267 H-loop/switch region; other site 660470006268 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470006269 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470006270 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470006271 TM-ABC transporter signature motif; other site 660470006272 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 660470006273 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 660470006274 ligand binding site [chemical binding]; other site 660470006275 dimerization interface [polypeptide binding]; other site 660470006276 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 660470006277 active site 660470006278 catalytic triad [active] 660470006279 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 660470006280 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 660470006281 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 660470006282 metal ion-dependent adhesion site (MIDAS); other site 660470006283 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 660470006284 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 660470006285 putative ligand binding site [chemical binding]; other site 660470006286 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470006287 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470006288 TM-ABC transporter signature motif; other site 660470006289 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470006290 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470006291 Walker A/P-loop; other site 660470006292 ATP binding site [chemical binding]; other site 660470006293 Q-loop/lid; other site 660470006294 ABC transporter signature motif; other site 660470006295 Walker B; other site 660470006296 D-loop; other site 660470006297 H-loop/switch region; other site 660470006298 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470006299 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 660470006300 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 660470006301 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470006302 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470006303 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470006304 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 660470006305 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 660470006306 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 660470006307 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470006308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470006309 Walker A/P-loop; other site 660470006310 ATP binding site [chemical binding]; other site 660470006311 Q-loop/lid; other site 660470006312 ABC transporter signature motif; other site 660470006313 Walker B; other site 660470006314 D-loop; other site 660470006315 H-loop/switch region; other site 660470006316 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470006317 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470006318 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 660470006319 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470006320 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470006321 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470006322 TM-ABC transporter signature motif; other site 660470006323 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470006324 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470006325 Walker A/P-loop; other site 660470006326 ATP binding site [chemical binding]; other site 660470006327 Q-loop/lid; other site 660470006328 ABC transporter signature motif; other site 660470006329 Walker B; other site 660470006330 D-loop; other site 660470006331 H-loop/switch region; other site 660470006332 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470006333 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470006334 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 660470006335 substrate binding site [chemical binding]; other site 660470006336 dimer interface [polypeptide binding]; other site 660470006337 ATP binding site [chemical binding]; other site 660470006338 BtpA family; Region: BtpA; cl00440 660470006339 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 660470006340 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470006341 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470006342 DNA binding site [nucleotide binding] 660470006343 domain linker motif; other site 660470006344 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470006345 dimerization interface [polypeptide binding]; other site 660470006346 ligand binding site [chemical binding]; other site 660470006347 PspC domain; Region: PspC; pfam04024 660470006348 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 660470006349 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 660470006350 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 660470006351 B12 binding site [chemical binding]; other site 660470006352 cobalt ligand [ion binding]; other site 660470006353 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 660470006354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470006355 Walker A/P-loop; other site 660470006356 ATP binding site [chemical binding]; other site 660470006357 Q-loop/lid; other site 660470006358 ABC transporter signature motif; other site 660470006359 Walker B; other site 660470006360 D-loop; other site 660470006361 H-loop/switch region; other site 660470006362 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 660470006363 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 660470006364 dimer interaction site [polypeptide binding]; other site 660470006365 substrate-binding tunnel; other site 660470006366 active site 660470006367 catalytic site [active] 660470006368 substrate binding site [chemical binding]; other site 660470006369 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 660470006370 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 660470006371 FeS/SAM binding site; other site 660470006372 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 660470006373 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 660470006374 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 660470006375 NAD(P) binding site [chemical binding]; other site 660470006376 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 660470006377 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; cd03440 660470006378 active site 2 [active] 660470006379 active site 1 [active] 660470006380 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 660470006381 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 660470006382 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 660470006383 Substrate binding site; other site 660470006384 dipeptidase PepV; Reviewed; Region: PRK07318 660470006385 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 660470006386 active site 660470006387 metal binding site [ion binding]; metal-binding site 660470006388 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 660470006389 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 660470006390 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 660470006391 adenylosuccinate lyase; Provisional; Region: PRK07492 660470006392 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 660470006393 tetramer interface [polypeptide binding]; other site 660470006394 active site 660470006395 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 660470006396 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 660470006397 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 660470006398 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 660470006399 active site 660470006400 HIGH motif; other site 660470006401 nucleotide binding site [chemical binding]; other site 660470006402 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 660470006403 KMSKS motif; other site 660470006404 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 660470006405 tRNA binding surface [nucleotide binding]; other site 660470006406 anticodon binding site; other site 660470006407 OsmC-like protein; Region: OsmC; pfam02566 660470006408 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 660470006409 active site 660470006410 catalytic triad [active] 660470006411 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 660470006412 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 660470006413 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 660470006414 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 660470006415 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 660470006416 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 660470006417 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 660470006418 homodimer interface [polypeptide binding]; other site 660470006419 NAD binding pocket [chemical binding]; other site 660470006420 ATP binding pocket [chemical binding]; other site 660470006421 Mg binding site [ion binding]; other site 660470006422 active-site loop [active] 660470006423 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 660470006424 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 660470006425 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 660470006426 homodimer interface [polypeptide binding]; other site 660470006427 substrate-cofactor binding pocket; other site 660470006428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006429 catalytic residue [active] 660470006430 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 660470006431 peptide binding site [polypeptide binding]; other site 660470006432 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 660470006433 dimer interface [polypeptide binding]; other site 660470006434 Zinc carboxypeptidase; Region: Peptidase_M14; pfam00246 660470006435 active site 660470006436 Zn binding site [ion binding]; other site 660470006437 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470006438 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 660470006439 dimer interface [polypeptide binding]; other site 660470006440 conserved gate region; other site 660470006441 putative PBP binding loops; other site 660470006442 ABC-ATPase subunit interface; other site 660470006443 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 660470006444 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470006445 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 660470006446 dimer interface [polypeptide binding]; other site 660470006447 conserved gate region; other site 660470006448 putative PBP binding loops; other site 660470006449 ABC-ATPase subunit interface; other site 660470006450 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470006451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470006452 Walker A/P-loop; other site 660470006453 ATP binding site [chemical binding]; other site 660470006454 Q-loop/lid; other site 660470006455 ABC transporter signature motif; other site 660470006456 Walker B; other site 660470006457 D-loop; other site 660470006458 H-loop/switch region; other site 660470006459 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470006460 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 660470006461 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470006462 Walker A/P-loop; other site 660470006463 ATP binding site [chemical binding]; other site 660470006464 Q-loop/lid; other site 660470006465 ABC transporter signature motif; other site 660470006466 Walker B; other site 660470006467 D-loop; other site 660470006468 H-loop/switch region; other site 660470006469 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470006470 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470006471 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 660470006472 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 660470006473 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 660470006474 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470006475 Walker A/P-loop; other site 660470006476 ATP binding site [chemical binding]; other site 660470006477 Q-loop/lid; other site 660470006478 ABC transporter signature motif; other site 660470006479 Walker B; other site 660470006480 D-loop; other site 660470006481 H-loop/switch region; other site 660470006482 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 660470006483 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 660470006484 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 660470006485 FMN binding site [chemical binding]; other site 660470006486 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 660470006487 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 660470006488 metal-binding site [ion binding] 660470006489 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 660470006490 Soluble P-type ATPase [General function prediction only]; Region: COG4087 660470006491 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 660470006492 dimerization interface [polypeptide binding]; other site 660470006493 putative DNA binding site [nucleotide binding]; other site 660470006494 putative Zn2+ binding site [ion binding]; other site 660470006495 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 660470006496 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 660470006497 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 660470006498 motif II; other site 660470006499 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 660470006500 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 660470006501 tetramer interface [polypeptide binding]; other site 660470006502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006503 catalytic residue [active] 660470006504 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 660470006505 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 660470006506 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 660470006507 active site 660470006508 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 660470006509 active site 2 [active] 660470006510 active site 1 [active] 660470006511 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 660470006512 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 660470006513 FeS/SAM binding site; other site 660470006514 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470006515 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470006516 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470006517 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470006518 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470006519 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 660470006520 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 660470006521 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 660470006522 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 660470006523 active site 660470006524 catalytic tetrad [active] 660470006525 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 660470006526 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 660470006527 Glutamate binding site [chemical binding]; other site 660470006528 homodimer interface [polypeptide binding]; other site 660470006529 NAD binding site [chemical binding]; other site 660470006530 catalytic residues [active] 660470006531 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 660470006532 hydroxyglutarate oxidase; Provisional; Region: PRK11728 660470006533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 660470006534 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470006535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470006536 4Fe-4S binding domain; Region: Fer4; pfam00037 660470006537 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 660470006538 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 660470006539 catalytic loop [active] 660470006540 iron binding site [ion binding]; other site 660470006541 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 660470006542 Glycerophosphodiester phosphodiesterase domain of Thermotoga maritime and similar proteins; Region: GDPD_TmGDE_like; cd08568 660470006543 putative active site [active] 660470006544 catalytic site [active] 660470006545 putative metal binding site [ion binding]; other site 660470006546 Uncharacterized conserved protein [Function unknown]; Region: COG1434 660470006547 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 660470006548 putative active site [active] 660470006549 Peptidase family C69; Region: Peptidase_C69; cl17793 660470006550 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 660470006551 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470006552 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470006553 Zn2+ binding site [ion binding]; other site 660470006554 Mg2+ binding site [ion binding]; other site 660470006555 Chromate transporter; Region: Chromate_transp; pfam02417 660470006556 Chromate transporter; Region: Chromate_transp; pfam02417 660470006557 PRC-barrel domain; Region: PRC; pfam05239 660470006558 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470006559 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 660470006560 Walker A/P-loop; other site 660470006561 ATP binding site [chemical binding]; other site 660470006562 Q-loop/lid; other site 660470006563 ABC transporter signature motif; other site 660470006564 Walker B; other site 660470006565 D-loop; other site 660470006566 H-loop/switch region; other site 660470006567 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 660470006568 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 660470006569 FtsX-like permease family; Region: FtsX; pfam02687 660470006570 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 660470006571 FtsX-like permease family; Region: FtsX; pfam02687 660470006572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470006573 Response regulator receiver domain; Region: Response_reg; pfam00072 660470006574 active site 660470006575 phosphorylation site [posttranslational modification] 660470006576 intermolecular recognition site; other site 660470006577 dimerization interface [polypeptide binding]; other site 660470006578 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 660470006579 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 660470006580 anti sigma factor interaction site; other site 660470006581 regulatory phosphorylation site [posttranslational modification]; other site 660470006582 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 660470006583 Histidine kinase-like ATPases; This family includes several ATP-binding 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 660470006584 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 660470006585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470006586 Walker A/P-loop; other site 660470006587 ATP binding site [chemical binding]; other site 660470006588 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 660470006589 ABC transporter signature motif; other site 660470006590 Walker B; other site 660470006591 D-loop; other site 660470006592 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 660470006593 Major Facilitator Superfamily; Region: MFS_1; pfam07690 660470006594 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 660470006595 putative substrate translocation pore; other site 660470006596 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 660470006597 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470006598 Walker A/P-loop; other site 660470006599 ATP binding site [chemical binding]; other site 660470006600 Q-loop/lid; other site 660470006601 ABC transporter signature motif; other site 660470006602 Walker B; other site 660470006603 D-loop; other site 660470006604 H-loop/switch region; other site 660470006605 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470006606 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470006607 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470006608 Walker A/P-loop; other site 660470006609 ATP binding site [chemical binding]; other site 660470006610 Q-loop/lid; other site 660470006611 ABC transporter signature motif; other site 660470006612 Walker B; other site 660470006613 D-loop; other site 660470006614 H-loop/switch region; other site 660470006615 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470006616 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470006617 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 660470006618 dimer interface [polypeptide binding]; other site 660470006619 conserved gate region; other site 660470006620 putative PBP binding loops; other site 660470006621 ABC-ATPase subunit interface; other site 660470006622 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470006623 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 660470006624 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 660470006625 ABC-ATPase subunit interface; other site 660470006626 putative PBP binding loops; other site 660470006627 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470006628 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_11; cd08516 660470006629 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 660470006630 Beta-lactamase; Region: Beta-lactamase; pfam00144 660470006631 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 660470006632 putative deacylase active site [active] 660470006633 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 660470006634 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 660470006635 Walker A/P-loop; other site 660470006636 ATP binding site [chemical binding]; other site 660470006637 Q-loop/lid; other site 660470006638 ABC transporter signature motif; other site 660470006639 Walker B; other site 660470006640 D-loop; other site 660470006641 H-loop/switch region; other site 660470006642 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 660470006643 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 660470006644 ABC-ATPase subunit interface; other site 660470006645 dimer interface [polypeptide binding]; other site 660470006646 putative PBP binding regions; other site 660470006647 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 660470006648 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 660470006649 intersubunit interface [polypeptide binding]; other site 660470006650 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 660470006651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470006652 ATP binding site [chemical binding]; other site 660470006653 Mg2+ binding site [ion binding]; other site 660470006654 G-X-G motif; other site 660470006655 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 660470006656 ATP binding site [chemical binding]; other site 660470006657 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 660470006658 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 660470006659 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 660470006660 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 660470006661 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; cl00258 660470006662 dimerization interface [polypeptide binding]; other site 660470006663 active site 660470006664 metal binding site [ion binding]; metal-binding site 660470006665 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 660470006666 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 660470006667 motif 1; other site 660470006668 active site 660470006669 motif 2; other site 660470006670 motif 3; other site 660470006671 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 660470006672 DHHA1 domain; Region: DHHA1; pfam02272 660470006673 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 660470006674 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 660470006675 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 660470006676 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 660470006677 catalytic residue [active] 660470006678 putative FPP diphosphate binding site; other site 660470006679 putative FPP binding hydrophobic cleft; other site 660470006680 dimer interface [polypeptide binding]; other site 660470006681 putative IPP diphosphate binding site; other site 660470006682 ribosome recycling factor; Reviewed; Region: frr; PRK00083 660470006683 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 660470006684 hinge region; other site 660470006685 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 660470006686 protein-export membrane protein SecD; Region: secD; TIGR01129 660470006687 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 660470006688 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 660470006689 Protein export membrane protein; Region: SecD_SecF; pfam02355 660470006690 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 660470006691 PLD-like domain; Region: PLDc_2; pfam13091 660470006692 putative active site [active] 660470006693 catalytic site [active] 660470006694 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 660470006695 PLD-like domain; Region: PLDc_2; pfam13091 660470006696 putative active site [active] 660470006697 catalytic site [active] 660470006698 NAD synthetase; Provisional; Region: PRK13981 660470006699 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 660470006700 multimer interface [polypeptide binding]; other site 660470006701 active site 660470006702 catalytic triad [active] 660470006703 protein interface 1 [polypeptide binding]; other site 660470006704 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 660470006705 homodimer interface [polypeptide binding]; other site 660470006706 NAD binding pocket [chemical binding]; other site 660470006707 ATP binding pocket [chemical binding]; other site 660470006708 Mg binding site [ion binding]; other site 660470006709 active-site loop [active] 660470006710 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006711 PAS domain; Region: PAS_9; pfam13426 660470006712 putative active site [active] 660470006713 heme pocket [chemical binding]; other site 660470006714 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 660470006715 PAS domain; Region: PAS_9; pfam13426 660470006716 putative active site [active] 660470006717 heme pocket [chemical binding]; other site 660470006718 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 660470006719 tetramer interface [polypeptide binding]; other site 660470006720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006721 catalytic residue [active] 660470006722 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 660470006723 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 660470006724 tetramer interface [polypeptide binding]; other site 660470006725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470006726 catalytic residue [active] 660470006727 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 660470006728 lipoyl attachment site [posttranslational modification]; other site 660470006729 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 660470006730 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 660470006731 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 660470006732 6-phosphofructokinase; Provisional; Region: PRK03202 660470006733 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 660470006734 active site 660470006735 ADP/pyrophosphate binding site [chemical binding]; other site 660470006736 dimerization interface [polypeptide binding]; other site 660470006737 allosteric effector site; other site 660470006738 fructose-1,6-bisphosphate binding site; other site 660470006739 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 660470006740 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 660470006741 domain interfaces; other site 660470006742 active site 660470006743 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 660470006744 oligomerisation interface [polypeptide binding]; other site 660470006745 mobile loop; other site 660470006746 roof hairpin; other site 660470006747 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 660470006748 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 660470006749 ring oligomerisation interface [polypeptide binding]; other site 660470006750 ATP/Mg binding site [chemical binding]; other site 660470006751 stacking interactions; other site 660470006752 hinge regions; other site 660470006753 Transposase [DNA replication, recombination, and repair]; Region: COG5421 660470006754 MoxR-like ATPases [General function prediction only]; Region: COG0714 660470006755 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 660470006756 Walker A motif; other site 660470006757 ATP binding site [chemical binding]; other site 660470006758 Walker B motif; other site 660470006759 arginine finger; other site 660470006760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 660470006761 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 660470006762 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 660470006763 Fumarase C-terminus; Region: Fumerase_C; cl00795 660470006764 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 660470006765 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 660470006766 intersubunit interface [polypeptide binding]; other site 660470006767 active site 660470006768 Zn2+ binding site [ion binding]; other site 660470006769 L-arabinose isomerase; Provisional; Region: PRK02929 660470006770 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 660470006771 hexamer (dimer of trimers) interface [polypeptide binding]; other site 660470006772 trimer interface [polypeptide binding]; other site 660470006773 substrate binding site [chemical binding]; other site 660470006774 Mn binding site [ion binding]; other site 660470006775 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 660470006776 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 660470006777 N- and C-terminal domain interface [polypeptide binding]; other site 660470006778 putative active site [active] 660470006779 MgATP binding site [chemical binding]; other site 660470006780 catalytic site [active] 660470006781 metal binding site [ion binding]; metal-binding site 660470006782 putative xylulose binding site [chemical binding]; other site 660470006783 putative homodimer interface [polypeptide binding]; other site 660470006784 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 660470006785 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 660470006786 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 660470006787 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 660470006788 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 660470006789 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470006790 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 660470006791 dimer interface [polypeptide binding]; other site 660470006792 conserved gate region; other site 660470006793 putative PBP binding loops; other site 660470006794 ABC-ATPase subunit interface; other site 660470006795 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 660470006796 dimer interface [polypeptide binding]; other site 660470006797 conserved gate region; other site 660470006798 putative PBP binding loops; other site 660470006799 ABC-ATPase subunit interface; other site 660470006800 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470006801 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 660470006802 Transcriptional regulators [Transcription]; Region: FadR; COG2186 660470006803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470006804 DNA-binding site [nucleotide binding]; DNA binding site 660470006805 transcriptional repressor RbsR; Provisional; Region: PRK10423 660470006806 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470006807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470006808 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470006809 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 660470006810 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 660470006811 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 660470006812 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 660470006813 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 660470006814 motif II; other site 660470006815 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 660470006816 Transposase [DNA replication, recombination, and repair]; Region: COG5421 660470006817 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 660470006818 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 660470006819 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 660470006820 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 660470006821 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 660470006822 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 660470006823 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 660470006824 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 660470006825 putative NAD(P) binding site [chemical binding]; other site 660470006826 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470006827 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 660470006828 dimer interface [polypeptide binding]; other site 660470006829 conserved gate region; other site 660470006830 putative PBP binding loops; other site 660470006831 ABC-ATPase subunit interface; other site 660470006832 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470006833 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 660470006834 dimer interface [polypeptide binding]; other site 660470006835 conserved gate region; other site 660470006836 putative PBP binding loops; other site 660470006837 ABC-ATPase subunit interface; other site 660470006838 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470006839 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470006840 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 660470006841 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 660470006842 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 660470006843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470006844 DNA-binding site [nucleotide binding]; DNA binding site 660470006845 UTRA domain; Region: UTRA; pfam07702 660470006846 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 660470006847 putative DNA binding site [nucleotide binding]; other site 660470006848 putative Zn2+ binding site [ion binding]; other site 660470006849 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470006850 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470006851 nucleotide binding site [chemical binding]; other site 660470006852 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 660470006853 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 660470006854 ligand binding site [chemical binding]; other site 660470006855 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 660470006856 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470006857 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470006858 Walker A/P-loop; other site 660470006859 ATP binding site [chemical binding]; other site 660470006860 Q-loop/lid; other site 660470006861 ABC transporter signature motif; other site 660470006862 Walker B; other site 660470006863 D-loop; other site 660470006864 H-loop/switch region; other site 660470006865 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470006866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470006867 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470006868 TM-ABC transporter signature motif; other site 660470006869 Nitrogen regulatory protein P-II; Region: P-II; smart00938 660470006870 Nitrogen regulatory protein P-II; Region: P-II; cl00412 660470006871 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 660470006872 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 660470006873 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 660470006874 active site 660470006875 dimer interface [polypeptide binding]; other site 660470006876 catalytic nucleophile [active] 660470006877 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 660470006878 potential frameshift: common BLAST hit: gi|310658354|ref|YP_003936075.1| histidine kinase 660470006879 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 660470006880 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 660470006881 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 660470006882 dimer interface [polypeptide binding]; other site 660470006883 phosphorylation site [posttranslational modification] 660470006884 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470006885 ATP binding site [chemical binding]; other site 660470006886 Mg2+ binding site [ion binding]; other site 660470006887 G-X-G motif; other site 660470006888 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 660470006889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470006890 active site 660470006891 phosphorylation site [posttranslational modification] 660470006892 intermolecular recognition site; other site 660470006893 dimerization interface [polypeptide binding]; other site 660470006894 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 660470006895 putative binding surface; other site 660470006896 active site 660470006897 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 660470006898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470006899 active site 660470006900 phosphorylation site [posttranslational modification] 660470006901 intermolecular recognition site; other site 660470006902 dimerization interface [polypeptide binding]; other site 660470006903 PAS domain S-box; Region: sensory_box; TIGR00229 660470006904 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006905 putative active site [active] 660470006906 heme pocket [chemical binding]; other site 660470006907 PAS domain; Region: PAS_9; pfam13426 660470006908 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006909 putative active site [active] 660470006910 heme pocket [chemical binding]; other site 660470006911 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470006912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470006913 metal binding site [ion binding]; metal-binding site 660470006914 active site 660470006915 I-site; other site 660470006916 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 660470006917 Cache domain; Region: Cache_1; pfam02743 660470006918 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 660470006919 dimerization interface [polypeptide binding]; other site 660470006920 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006921 PAS domain; Region: PAS_9; pfam13426 660470006922 putative active site [active] 660470006923 heme pocket [chemical binding]; other site 660470006924 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470006925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470006926 metal binding site [ion binding]; metal-binding site 660470006927 active site 660470006928 I-site; other site 660470006929 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470006930 Zn2+ binding site [ion binding]; other site 660470006931 Mg2+ binding site [ion binding]; other site 660470006932 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006933 PAS domain; Region: PAS_9; pfam13426 660470006934 putative active site [active] 660470006935 heme pocket [chemical binding]; other site 660470006936 PAS domain S-box; Region: sensory_box; TIGR00229 660470006937 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006938 putative active site [active] 660470006939 heme pocket [chemical binding]; other site 660470006940 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006941 PAS domain; Region: PAS_9; pfam13426 660470006942 putative active site [active] 660470006943 heme pocket [chemical binding]; other site 660470006944 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470006945 Zn2+ binding site [ion binding]; other site 660470006946 Mg2+ binding site [ion binding]; other site 660470006947 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 660470006948 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 660470006949 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 660470006950 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 660470006951 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 660470006952 FeS/SAM binding site; other site 660470006953 Beta-lactamase; Region: Beta-lactamase; pfam00144 660470006954 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 660470006955 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 660470006956 Beta-lactamase; Region: Beta-lactamase; pfam00144 660470006957 Uncharacterized conserved protein [Function unknown]; Region: COG5361 660470006958 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 660470006959 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 660470006960 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 660470006961 Cache domain; Region: Cache_1; pfam02743 660470006962 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 660470006963 dimerization interface [polypeptide binding]; other site 660470006964 PAS fold; Region: PAS; pfam00989 660470006965 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470006966 putative active site [active] 660470006967 heme pocket [chemical binding]; other site 660470006968 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470006969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470006970 metal binding site [ion binding]; metal-binding site 660470006971 active site 660470006972 I-site; other site 660470006973 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470006974 Zn2+ binding site [ion binding]; other site 660470006975 Mg2+ binding site [ion binding]; other site 660470006976 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470006977 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470006978 Walker A/P-loop; other site 660470006979 ATP binding site [chemical binding]; other site 660470006980 Q-loop/lid; other site 660470006981 ABC transporter signature motif; other site 660470006982 Walker B; other site 660470006983 D-loop; other site 660470006984 H-loop/switch region; other site 660470006985 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470006986 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470006987 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470006988 Walker A/P-loop; other site 660470006989 ATP binding site [chemical binding]; other site 660470006990 Q-loop/lid; other site 660470006991 ABC transporter signature motif; other site 660470006992 Walker B; other site 660470006993 D-loop; other site 660470006994 H-loop/switch region; other site 660470006995 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470006996 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 660470006997 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470006998 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 660470006999 dimer interface [polypeptide binding]; other site 660470007000 conserved gate region; other site 660470007001 putative PBP binding loops; other site 660470007002 ABC-ATPase subunit interface; other site 660470007003 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470007004 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 660470007005 dimer interface [polypeptide binding]; other site 660470007006 conserved gate region; other site 660470007007 putative PBP binding loops; other site 660470007008 ABC-ATPase subunit interface; other site 660470007009 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470007010 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 660470007011 substrate binding site [chemical binding]; other site 660470007012 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 660470007013 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 660470007014 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 660470007015 putative substrate translocation pore; other site 660470007016 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 660470007017 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470007018 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 660470007019 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 660470007020 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 660470007021 catalytic residue [active] 660470007022 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470007023 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007024 TM-ABC transporter signature motif; other site 660470007025 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007026 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 660470007027 Walker A/P-loop; other site 660470007028 ATP binding site [chemical binding]; other site 660470007029 Q-loop/lid; other site 660470007030 ABC transporter signature motif; other site 660470007031 Walker B; other site 660470007032 D-loop; other site 660470007033 H-loop/switch region; other site 660470007034 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 660470007035 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 660470007036 conserved cys residue [active] 660470007037 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 660470007038 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 660470007039 nucleotide binding site [chemical binding]; other site 660470007040 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 660470007041 Archaeal ATPase; Region: Arch_ATPase; pfam01637 660470007042 AAA ATPase domain; Region: AAA_16; pfam13191 660470007043 Walker A motif; other site 660470007044 ATP binding site [chemical binding]; other site 660470007045 Walker B motif; other site 660470007046 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 660470007047 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 660470007048 CRISPR system related protein, RAMP superfamily [Defense mechanisms]; Region: COG1336 660470007049 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701 660470007050 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701 660470007051 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 660470007052 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 660470007053 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 660470007054 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 660470007055 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 660470007056 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 660470007057 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 660470007058 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 660470007059 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 660470007060 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 660470007061 Family of unknown function (DUF694); Region: DUF694; pfam05107 660470007062 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 660470007063 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 660470007064 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 660470007065 four helix bundle protein; Region: TIGR02436 660470007066 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 660470007067 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 660470007068 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 660470007069 non-specific DNA binding site [nucleotide binding]; other site 660470007070 salt bridge; other site 660470007071 sequence-specific DNA binding site [nucleotide binding]; other site 660470007072 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 660470007073 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 660470007074 hypothetical protein; Validated; Region: PRK08116 660470007075 Transposase, Mutator family; Region: Transposase_mut; pfam00872 660470007076 MULE transposase domain; Region: MULE; pfam10551 660470007077 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 660470007078 four helix bundle protein; Region: TIGR02436 660470007079 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470007080 TPR motif; other site 660470007081 binding surface 660470007082 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 660470007083 non-specific DNA binding site [nucleotide binding]; other site 660470007084 salt bridge; other site 660470007085 sequence-specific DNA binding site [nucleotide binding]; other site 660470007086 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 660470007087 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 660470007088 non-specific DNA binding site [nucleotide binding]; other site 660470007089 salt bridge; other site 660470007090 sequence-specific DNA binding site [nucleotide binding]; other site 660470007091 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470007092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 660470007093 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470007094 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470007095 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470007096 putative active site [active] 660470007097 putative NTP binding site [chemical binding]; other site 660470007098 putative nucleic acid binding site [nucleotide binding]; other site 660470007099 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470007100 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 660470007101 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 660470007102 Transcriptional regulators [Transcription]; Region: MarR; COG1846 660470007103 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 660470007104 putative DNA binding site [nucleotide binding]; other site 660470007105 putative Zn2+ binding site [ion binding]; other site 660470007106 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 660470007107 Ankyrin repeat; Region: Ank; pfam00023 660470007108 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 660470007109 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 660470007110 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 660470007111 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 660470007112 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 660470007113 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 660470007114 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 660470007115 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 660470007116 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 660470007117 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 660470007118 aspartate racemase; Region: asp_race; TIGR00035 660470007119 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 660470007120 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470007121 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 660470007122 AAA domain; Region: AAA_32; pfam13654 660470007123 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 660470007124 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 660470007125 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 660470007126 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 660470007127 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 660470007128 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 660470007129 Walker A/P-loop; other site 660470007130 ATP binding site [chemical binding]; other site 660470007131 Q-loop/lid; other site 660470007132 ABC transporter signature motif; other site 660470007133 Walker B; other site 660470007134 D-loop; other site 660470007135 H-loop/switch region; other site 660470007136 PAS domain S-box; Region: sensory_box; TIGR00229 660470007137 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470007138 putative active site [active] 660470007139 heme pocket [chemical binding]; other site 660470007140 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470007141 PAS domain; Region: PAS_9; pfam13426 660470007142 putative active site [active] 660470007143 heme pocket [chemical binding]; other site 660470007144 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470007145 GAF domain; Region: GAF_3; pfam13492 660470007146 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470007147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470007148 metal binding site [ion binding]; metal-binding site 660470007149 active site 660470007150 I-site; other site 660470007151 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470007152 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470007153 Zn2+ binding site [ion binding]; other site 660470007154 Mg2+ binding site [ion binding]; other site 660470007155 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 660470007156 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 660470007157 amino acid transporter; Region: 2A0306; TIGR00909 660470007158 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 660470007159 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 660470007160 active site 660470007161 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470007162 PAS domain; Region: PAS_9; pfam13426 660470007163 putative active site [active] 660470007164 heme pocket [chemical binding]; other site 660470007165 GAF domain; Region: GAF_2; pfam13185 660470007166 GAF domain; Region: GAF; pfam01590 660470007167 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 660470007168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 660470007169 Zn2+ binding site [ion binding]; other site 660470007170 Mg2+ binding site [ion binding]; other site 660470007171 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 660470007172 Transcriptional regulator [Transcription]; Region: IclR; COG1414 660470007173 Bacterial transcriptional regulator; Region: IclR; pfam01614 660470007174 DctM-like transporters; Region: DctM; pfam06808 660470007175 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 660470007176 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 660470007177 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 660470007178 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 660470007179 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 660470007180 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 660470007181 dimer interface [polypeptide binding]; other site 660470007182 active site 660470007183 catalytic residue [active] 660470007184 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470007185 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470007186 DNA binding site [nucleotide binding] 660470007187 domain linker motif; other site 660470007188 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470007189 dimerization interface [polypeptide binding]; other site 660470007190 ligand binding site [chemical binding]; other site 660470007191 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470007192 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470007193 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 660470007194 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 660470007195 dimer interface [polypeptide binding]; other site 660470007196 conserved gate region; other site 660470007197 putative PBP binding loops; other site 660470007198 ABC-ATPase subunit interface; other site 660470007199 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470007200 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 660470007201 dimer interface [polypeptide binding]; other site 660470007202 conserved gate region; other site 660470007203 putative PBP binding loops; other site 660470007204 ABC-ATPase subunit interface; other site 660470007205 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 660470007206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 660470007207 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 660470007208 Prephenate dehydratase; Region: PDT; pfam00800 660470007209 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 660470007210 putative L-Phe binding site [chemical binding]; other site 660470007211 Uncharacterized conserved protein [Function unknown]; Region: COG5361 660470007212 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 660470007213 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 660470007214 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 660470007215 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 660470007216 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 660470007217 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 660470007218 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 660470007219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 660470007220 short chain dehydrogenase; Validated; Region: PRK08264 660470007221 classical (c) SDRs; Region: SDR_c; cd05233 660470007222 NAD(P) binding site [chemical binding]; other site 660470007223 active site 660470007224 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 660470007225 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 660470007226 catalytic core [active] 660470007227 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 660470007228 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 660470007229 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 660470007230 Uncharacterized conserved protein [Function unknown]; Region: COG1262 660470007231 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 660470007232 Predicted transcriptional regulators [Transcription]; Region: COG1695 660470007233 Transcriptional regulator PadR-like family; Region: PadR; cl17335 660470007234 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470007235 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 660470007236 ABC-ATPase subunit interface; other site 660470007237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 660470007238 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 660470007239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 660470007240 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 660470007241 Double zinc ribbon; Region: DZR; pfam12773 660470007242 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 660470007243 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 660470007244 putative deacylase active site [active] 660470007245 peptide chain release factor 1; Validated; Region: prfA; PRK00591 660470007246 This domain is found in peptide chain release factors; Region: PCRF; smart00937 660470007247 RF-1 domain; Region: RF-1; pfam00472 660470007248 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 660470007249 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 660470007250 Walker A motif; other site 660470007251 ATP binding site [chemical binding]; other site 660470007252 Walker B motif; other site 660470007253 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 660470007254 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 660470007255 Ca binding site [ion binding]; other site 660470007256 active site 660470007257 catalytic site [active] 660470007258 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 660470007259 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 660470007260 Rubrerythrin [Energy production and conversion]; Region: COG1592 660470007261 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 660470007262 binuclear metal center [ion binding]; other site 660470007263 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 660470007264 iron binding site [ion binding]; other site 660470007265 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 660470007266 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 660470007267 active site 660470007268 nucleophile elbow; other site 660470007269 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 660470007270 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 660470007271 hinge; other site 660470007272 active site 660470007273 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 660470007274 Radical SAM superfamily; Region: Radical_SAM; pfam04055 660470007275 FeS/SAM binding site; other site 660470007276 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 660470007277 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 660470007278 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 660470007279 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 660470007280 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07234 660470007281 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 660470007282 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 660470007283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470007284 Coenzyme A binding pocket [chemical binding]; other site 660470007285 Acylphosphatase; Region: Acylphosphatase; pfam00708 660470007286 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 660470007287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470007288 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 660470007289 Predicted solute binding protein [General function prediction only]; Region: COG3889 660470007290 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 660470007291 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470007292 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 660470007293 dimer interface [polypeptide binding]; other site 660470007294 conserved gate region; other site 660470007295 putative PBP binding loops; other site 660470007296 ABC-ATPase subunit interface; other site 660470007297 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470007298 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 660470007299 dimer interface [polypeptide binding]; other site 660470007300 conserved gate region; other site 660470007301 putative PBP binding loops; other site 660470007302 ABC-ATPase subunit interface; other site 660470007303 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470007304 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007305 Walker A/P-loop; other site 660470007306 ATP binding site [chemical binding]; other site 660470007307 Q-loop/lid; other site 660470007308 ABC transporter signature motif; other site 660470007309 Walker B; other site 660470007310 D-loop; other site 660470007311 H-loop/switch region; other site 660470007312 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 660470007313 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 660470007314 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007315 Walker A/P-loop; other site 660470007316 ATP binding site [chemical binding]; other site 660470007317 Q-loop/lid; other site 660470007318 ABC transporter signature motif; other site 660470007319 Walker B; other site 660470007320 D-loop; other site 660470007321 H-loop/switch region; other site 660470007322 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470007323 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470007324 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470007325 putative active site [active] 660470007326 putative NTP binding site [chemical binding]; other site 660470007327 putative nucleic acid binding site [nucleotide binding]; other site 660470007328 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470007329 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 660470007330 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 660470007331 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 660470007332 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470007333 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007334 TM-ABC transporter signature motif; other site 660470007335 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470007336 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007337 TM-ABC transporter signature motif; other site 660470007338 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470007339 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470007340 Walker A/P-loop; other site 660470007341 ATP binding site [chemical binding]; other site 660470007342 Q-loop/lid; other site 660470007343 ABC transporter signature motif; other site 660470007344 Walker B; other site 660470007345 D-loop; other site 660470007346 H-loop/switch region; other site 660470007347 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470007348 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 660470007349 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 660470007350 ligand binding site [chemical binding]; other site 660470007351 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 660470007352 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 660470007353 N- and C-terminal domain interface [polypeptide binding]; other site 660470007354 active site 660470007355 MgATP binding site [chemical binding]; other site 660470007356 catalytic site [active] 660470007357 metal binding site [ion binding]; metal-binding site 660470007358 xylulose binding site [chemical binding]; other site 660470007359 homodimer interface [polypeptide binding]; other site 660470007360 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 660470007361 intersubunit interface [polypeptide binding]; other site 660470007362 active site 660470007363 Zn2+ binding site [ion binding]; other site 660470007364 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 660470007365 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 660470007366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470007367 DNA-binding site [nucleotide binding]; DNA binding site 660470007368 UTRA domain; Region: UTRA; pfam07702 660470007369 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470007370 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470007371 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 660470007372 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 660470007373 active site 660470007374 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 660470007375 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 660470007376 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470007377 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 660470007378 dimer interface [polypeptide binding]; other site 660470007379 conserved gate region; other site 660470007380 putative PBP binding loops; other site 660470007381 ABC-ATPase subunit interface; other site 660470007382 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470007383 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 660470007384 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 660470007385 dimer interface [polypeptide binding]; other site 660470007386 conserved gate region; other site 660470007387 putative PBP binding loops; other site 660470007388 ABC-ATPase subunit interface; other site 660470007389 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470007390 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007391 Walker A/P-loop; other site 660470007392 ATP binding site [chemical binding]; other site 660470007393 Q-loop/lid; other site 660470007394 ABC transporter signature motif; other site 660470007395 Walker B; other site 660470007396 D-loop; other site 660470007397 H-loop/switch region; other site 660470007398 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470007399 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 660470007400 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007401 Walker A/P-loop; other site 660470007402 ATP binding site [chemical binding]; other site 660470007403 Q-loop/lid; other site 660470007404 ABC transporter signature motif; other site 660470007405 Walker B; other site 660470007406 D-loop; other site 660470007407 H-loop/switch region; other site 660470007408 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470007409 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 660470007410 EamA-like transporter family; Region: EamA; pfam00892 660470007411 EamA-like transporter family; Region: EamA; pfam00892 660470007412 putative pectinesterase; Region: PLN02432; cl01911 660470007413 Right handed beta helix region; Region: Beta_helix; pfam13229 660470007414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470007415 Coenzyme A binding pocket [chemical binding]; other site 660470007416 Sterol carrier protein domain; Region: SCP2_2; pfam13530 660470007417 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 660470007418 Uncharacterized conserved protein [Function unknown]; Region: COG1262 660470007419 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 660470007420 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 660470007421 Uncharacterized conserved protein [Function unknown]; Region: COG1262 660470007422 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 660470007423 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 660470007424 Predicted transcriptional regulators [Transcription]; Region: COG1695 660470007425 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 660470007426 D-cysteine desulfhydrase; Validated; Region: PRK03910 660470007427 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 660470007428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470007429 catalytic residue [active] 660470007430 Peptidase family M48; Region: Peptidase_M48; pfam01435 660470007431 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 660470007432 Mechanosensitive ion channel; Region: MS_channel; pfam00924 660470007433 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 660470007434 dimer interface [polypeptide binding]; other site 660470007435 conserved gate region; other site 660470007436 ABC-ATPase subunit interface; other site 660470007437 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 660470007438 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 660470007439 Walker A/P-loop; other site 660470007440 ATP binding site [chemical binding]; other site 660470007441 Q-loop/lid; other site 660470007442 ABC transporter signature motif; other site 660470007443 Walker B; other site 660470007444 D-loop; other site 660470007445 H-loop/switch region; other site 660470007446 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 660470007447 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 660470007448 dimer interface [polypeptide binding]; other site 660470007449 conserved gate region; other site 660470007450 putative PBP binding loops; other site 660470007451 ABC-ATPase subunit interface; other site 660470007452 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 660470007453 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 660470007454 mercuric reductase; Validated; Region: PRK06370 660470007455 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 660470007456 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 660470007457 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 660470007458 Mechanosensitive ion channel; Region: MS_channel; pfam00924 660470007459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 660470007460 Putative glucoamylase; Region: Glycoamylase; pfam10091 660470007461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 660470007462 Putative glucoamylase; Region: Glycoamylase; pfam10091 660470007463 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470007464 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 660470007465 dimer interface [polypeptide binding]; other site 660470007466 conserved gate region; other site 660470007467 putative PBP binding loops; other site 660470007468 ABC-ATPase subunit interface; other site 660470007469 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 660470007470 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 660470007471 dimer interface [polypeptide binding]; other site 660470007472 ABC-ATPase subunit interface; other site 660470007473 putative PBP binding loops; other site 660470007474 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[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 660470007475 TPR motif; other site 660470007476 binding surface 660470007477 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470007478 TraP protein; Region: TraP; cl11652 660470007479 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 660470007480 dimer interface [polypeptide binding]; other site 660470007481 conserved gate region; other site 660470007482 ABC-ATPase subunit interface; other site 660470007483 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 660470007484 dimer interface [polypeptide binding]; other site 660470007485 conserved gate region; other site 660470007486 putative PBP binding loops; other site 660470007487 ABC-ATPase subunit interface; other site 660470007488 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 660470007489 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470007490 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470007491 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470007492 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470007493 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 660470007494 Putative carbohydrate binding domain; Region: CBM_X; pfam06204 660470007495 Glycoside hydrolase family 94 N-terminal-like domain of uncharacterized function; Region: GH94N_like_4; cd11751 660470007496 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 660470007497 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 660470007498 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 660470007499 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 660470007500 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 660470007501 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 660470007502 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470007503 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470007504 DNA binding site [nucleotide binding] 660470007505 domain linker motif; other site 660470007506 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470007507 dimerization interface [polypeptide binding]; other site 660470007508 ligand binding site [chemical binding]; other site 660470007509 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 660470007510 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 660470007511 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 660470007512 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 660470007513 FeS/SAM binding site; other site 660470007514 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 660470007515 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 660470007516 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 660470007517 substrate binding pocket [chemical binding]; other site 660470007518 membrane-bound complex binding site; other site 660470007519 hinge residues; other site 660470007520 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 660470007521 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 660470007522 substrate binding pocket [chemical binding]; other site 660470007523 membrane-bound complex binding site; other site 660470007524 hinge residues; other site 660470007525 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 660470007526 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 660470007527 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 660470007528 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 660470007529 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 660470007530 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 660470007531 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 660470007532 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 660470007533 active site 660470007534 oxyanion hole [active] 660470007535 YheO-like PAS domain; Region: PAS_6; pfam08348 660470007536 HTH domain; Region: HTH_22; pfam13309 660470007537 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 660470007538 homotrimer interaction site [polypeptide binding]; other site 660470007539 putative active site [active] 660470007540 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 660470007541 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 660470007542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470007543 homodimer interface [polypeptide binding]; other site 660470007544 catalytic residue [active] 660470007545 dipeptidase PepV; Reviewed; Region: PRK07318 660470007546 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 660470007547 active site 660470007548 metal binding site [ion binding]; metal-binding site 660470007549 S-layer homology domain; Region: SLH; pfam00395 660470007550 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 660470007551 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 660470007552 active site 660470007553 metal binding site [ion binding]; metal-binding site 660470007554 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 660470007555 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 660470007556 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 660470007557 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 660470007558 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 660470007559 lipoyl synthase; Provisional; Region: PRK05481 660470007560 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 660470007561 FeS/SAM binding site; other site 660470007562 SnoaL-like domain; Region: SnoaL_2; pfam12680 660470007563 oxidoreductase; Provisional; Region: PRK06196 660470007564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 660470007565 NAD(P) binding site [chemical binding]; other site 660470007566 active site 660470007567 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 660470007568 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 660470007569 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 660470007570 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 660470007571 nudix motif; other site 660470007572 nudix motif; other site 660470007573 Polypeptide deformylase; Region: Pep_deformylase; pfam01327 660470007574 active site 660470007575 catalytic residues [active] 660470007576 metal binding site [ion binding]; metal-binding site 660470007577 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 660470007578 active site 660470007579 catalytic triad [active] 660470007580 oxyanion hole [active] 660470007581 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 660470007582 D-xylulose kinase; Region: XylB; TIGR01312 660470007583 nucleotide binding site [chemical binding]; other site 660470007584 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 660470007585 Uncharacterized conserved protein [Function unknown]; Region: COG1262 660470007586 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 660470007587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470007588 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 660470007589 Walker A/P-loop; other site 660470007590 ATP binding site [chemical binding]; other site 660470007591 Q-loop/lid; other site 660470007592 ABC transporter signature motif; other site 660470007593 Walker B; other site 660470007594 D-loop; other site 660470007595 H-loop/switch region; other site 660470007596 GAF domain; Region: GAF_3; pfam13492 660470007597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 660470007598 Histidine kinase; Region: HisKA_2; pfam07568 660470007599 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470007600 ATP binding site [chemical binding]; other site 660470007601 Mg2+ binding site [ion binding]; other site 660470007602 G-X-G motif; other site 660470007603 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 660470007604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470007605 active site 660470007606 phosphorylation site [posttranslational modification] 660470007607 intermolecular recognition site; other site 660470007608 dimerization interface [polypeptide binding]; other site 660470007609 ANTAR domain; Region: ANTAR; pfam03861 660470007610 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 660470007611 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 660470007612 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 660470007613 ligand binding site [chemical binding]; other site 660470007614 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007615 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470007616 TM-ABC transporter signature motif; other site 660470007617 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470007618 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007619 TM-ABC transporter signature motif; other site 660470007620 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470007621 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470007622 Walker A/P-loop; other site 660470007623 ATP binding site [chemical binding]; other site 660470007624 Q-loop/lid; other site 660470007625 ABC transporter signature motif; other site 660470007626 Walker B; other site 660470007627 D-loop; other site 660470007628 H-loop/switch region; other site 660470007629 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470007630 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 660470007631 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 660470007632 DAK2 domain; Region: Dak2; cl03685 660470007633 carotene isomerase; Region: carot_isom; TIGR02730 660470007634 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 660470007635 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 660470007636 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 660470007637 N- and C-terminal domain interface [polypeptide binding]; other site 660470007638 active site 660470007639 MgATP binding site [chemical binding]; other site 660470007640 catalytic site [active] 660470007641 metal binding site [ion binding]; metal-binding site 660470007642 xylulose binding site [chemical binding]; other site 660470007643 putative homodimer interface [polypeptide binding]; other site 660470007644 Class I aldolases; Region: Aldolase_Class_I; cl17187 660470007645 catalytic residue [active] 660470007646 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 660470007647 intersubunit interface [polypeptide binding]; other site 660470007648 active site 660470007649 catalytic residue [active] 660470007650 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470007651 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470007652 DNA binding site [nucleotide binding] 660470007653 domain linker motif; other site 660470007654 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470007655 dimerization interface [polypeptide binding]; other site 660470007656 ligand binding site [chemical binding]; other site 660470007657 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 660470007658 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 660470007659 putative active site [active] 660470007660 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 660470007661 dimer interface [polypeptide binding]; other site 660470007662 active site 660470007663 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 660470007664 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 660470007665 active site 660470007666 dimer interface [polypeptide binding]; other site 660470007667 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 660470007668 PAS domain; Region: PAS_9; pfam13426 660470007669 putative active site [active] 660470007670 heme pocket [chemical binding]; other site 660470007671 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470007672 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 660470007673 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470007674 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470007675 putative active site [active] 660470007676 putative NTP binding site [chemical binding]; other site 660470007677 putative nucleic acid binding site [nucleotide binding]; other site 660470007678 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470007679 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 660470007680 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_12; cd13142 660470007681 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 660470007682 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 660470007683 putative ligand binding site [chemical binding]; other site 660470007684 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007685 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 660470007686 TM-ABC transporter signature motif; other site 660470007687 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 660470007688 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 660470007689 TM-ABC transporter signature motif; other site 660470007690 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 660470007691 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 660470007692 Walker A/P-loop; other site 660470007693 ATP binding site [chemical binding]; other site 660470007694 Q-loop/lid; other site 660470007695 ABC transporter signature motif; other site 660470007696 Walker B; other site 660470007697 D-loop; other site 660470007698 H-loop/switch region; other site 660470007699 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 660470007700 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 660470007701 Walker A/P-loop; other site 660470007702 ATP binding site [chemical binding]; other site 660470007703 Q-loop/lid; other site 660470007704 ABC transporter signature motif; other site 660470007705 Walker B; other site 660470007706 D-loop; other site 660470007707 H-loop/switch region; other site 660470007708 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 660470007709 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 660470007710 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 660470007711 DAK2 domain; Region: Dak2; pfam02734 660470007712 EDD domain protein, DegV family; Region: DegV; TIGR00762 660470007713 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 660470007714 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 660470007715 DNA-binding site [nucleotide binding]; DNA binding site 660470007716 RNA-binding motif; other site 660470007717 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 660470007718 Protein of unknown function DUF58; Region: DUF58; pfam01882 660470007719 MoxR-like ATPases [General function prediction only]; Region: COG0714 660470007720 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 660470007721 Walker A motif; other site 660470007722 ATP binding site [chemical binding]; other site 660470007723 Walker B motif; other site 660470007724 arginine finger; other site 660470007725 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 660470007726 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 660470007727 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470007728 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 660470007729 dimer interface [polypeptide binding]; other site 660470007730 conserved gate region; other site 660470007731 putative PBP binding loops; other site 660470007732 ABC-ATPase subunit interface; other site 660470007733 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 660470007734 dimer interface [polypeptide binding]; other site 660470007735 conserved gate region; other site 660470007736 putative PBP binding loops; other site 660470007737 ABC-ATPase subunit interface; other site 660470007738 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 660470007739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470007740 Walker A/P-loop; other site 660470007741 ATP binding site [chemical binding]; other site 660470007742 Q-loop/lid; other site 660470007743 ABC transporter signature motif; other site 660470007744 Walker B; other site 660470007745 D-loop; other site 660470007746 H-loop/switch region; other site 660470007747 TOBE domain; Region: TOBE_2; pfam08402 660470007748 Protein of unknown function (DUF401); Region: DUF401; cl00830 660470007749 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 660470007750 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 660470007751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470007752 Coenzyme A binding pocket [chemical binding]; other site 660470007753 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 660470007754 Predicted solute binding protein [General function prediction only]; Region: COG3889 660470007755 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 660470007756 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 660470007757 intersubunit interface [polypeptide binding]; other site 660470007758 active site 660470007759 Zn2+ binding site [ion binding]; other site 660470007760 Transposase; Region: DEDD_Tnp_IS110; pfam01548 660470007761 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 660470007762 FAD binding domain; Region: FAD_binding_4; pfam01565 660470007763 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 660470007764 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 660470007765 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 660470007766 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 660470007767 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 660470007768 Ligand binding site [chemical binding]; other site 660470007769 Electron transfer flavoprotein domain; Region: ETF; pfam01012 660470007770 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 660470007771 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 660470007772 substrate binding pocket [chemical binding]; other site 660470007773 membrane-bound complex binding site; other site 660470007774 hinge residues; other site 660470007775 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 660470007776 GAF domain; Region: GAF_3; pfam13492 660470007777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 660470007778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 660470007779 metal binding site [ion binding]; metal-binding site 660470007780 active site 660470007781 I-site; other site 660470007782 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 660470007783 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 660470007784 putative ligand binding site [chemical binding]; other site 660470007785 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 660470007786 intersubunit interface [polypeptide binding]; other site 660470007787 active site 660470007788 catalytic residue [active] 660470007789 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 660470007790 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 660470007791 Walker A/P-loop; other site 660470007792 ATP binding site [chemical binding]; other site 660470007793 Q-loop/lid; other site 660470007794 ABC transporter signature motif; other site 660470007795 Walker B; other site 660470007796 D-loop; other site 660470007797 H-loop/switch region; other site 660470007798 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 660470007799 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470007800 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 660470007801 TM-ABC transporter signature motif; other site 660470007802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 660470007803 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 660470007804 active site 660470007805 metal binding site [ion binding]; metal-binding site 660470007806 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 660470007807 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 660470007808 substrate binding site [chemical binding]; other site 660470007809 dimer interface [polypeptide binding]; other site 660470007810 ATP binding site [chemical binding]; other site 660470007811 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 660470007812 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 660470007813 N- and C-terminal domain interface [polypeptide binding]; other site 660470007814 active site 660470007815 MgATP binding site [chemical binding]; other site 660470007816 catalytic site [active] 660470007817 metal binding site [ion binding]; metal-binding site 660470007818 xylulose binding site [chemical binding]; other site 660470007819 putative homodimer interface [polypeptide binding]; other site 660470007820 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 660470007821 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470007822 DNA-binding site [nucleotide binding]; DNA binding site 660470007823 UTRA domain; Region: UTRA; pfam07702 660470007824 D-ribose pyranase; Provisional; Region: PRK11797 660470007825 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 660470007826 active site 660470007827 dimer interface [polypeptide binding]; other site 660470007828 magnesium binding site [ion binding]; other site 660470007829 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 660470007830 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 660470007831 tetramer interface [polypeptide binding]; other site 660470007832 active site 660470007833 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 660470007834 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 660470007835 active site 660470007836 catalytic tetrad [active] 660470007837 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 660470007838 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 660470007839 NAD(P) binding site [chemical binding]; other site 660470007840 translocation protein TolB; Provisional; Region: tolB; PRK04792 660470007841 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 660470007842 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007843 Walker A/P-loop; other site 660470007844 ATP binding site [chemical binding]; other site 660470007845 Q-loop/lid; other site 660470007846 ABC transporter signature motif; other site 660470007847 Walker B; other site 660470007848 D-loop; other site 660470007849 H-loop/switch region; other site 660470007850 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 660470007851 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 660470007852 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 660470007853 Walker A/P-loop; other site 660470007854 ATP binding site [chemical binding]; other site 660470007855 Q-loop/lid; other site 660470007856 ABC transporter signature motif; other site 660470007857 Walker B; other site 660470007858 D-loop; other site 660470007859 H-loop/switch region; other site 660470007860 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 660470007861 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 660470007862 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 660470007863 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 660470007864 dimer interface [polypeptide binding]; other site 660470007865 conserved gate region; other site 660470007866 putative PBP binding loops; other site 660470007867 ABC-ATPase subunit interface; other site 660470007868 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 660470007869 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 660470007870 dimer interface [polypeptide binding]; other site 660470007871 conserved gate region; other site 660470007872 putative PBP binding loops; other site 660470007873 ABC-ATPase subunit interface; other site 660470007874 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 660470007875 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_4; cd08500 660470007876 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 660470007877 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 660470007878 Beta-lactamase; Region: Beta-lactamase; pfam00144 660470007879 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 660470007880 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 660470007881 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 660470007882 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 660470007883 putative active site [active] 660470007884 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 660470007885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470007886 DNA-binding site [nucleotide binding]; DNA binding site 660470007887 UTRA domain; Region: UTRA; pfam07702 660470007888 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 660470007889 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 660470007890 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470007891 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 660470007892 dimer interface [polypeptide binding]; other site 660470007893 conserved gate region; other site 660470007894 putative PBP binding loops; other site 660470007895 ABC-ATPase subunit interface; other site 660470007896 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470007897 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 660470007898 dimer interface [polypeptide binding]; other site 660470007899 conserved gate region; other site 660470007900 putative PBP binding loops; other site 660470007901 ABC-ATPase subunit interface; other site 660470007902 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470007903 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470007904 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 660470007905 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 660470007906 Haemolysin-III related; Region: HlyIII; cl03831 660470007907 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 660470007908 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470007909 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470007910 DNA binding site [nucleotide binding] 660470007911 domain linker motif; other site 660470007912 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470007913 ligand binding site [chemical binding]; other site 660470007914 dimerization interface [polypeptide binding]; other site 660470007915 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470007916 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470007917 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 660470007918 dimer interface [polypeptide binding]; other site 660470007919 conserved gate region; other site 660470007920 putative PBP binding loops; other site 660470007921 ABC-ATPase subunit interface; other site 660470007922 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470007923 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 660470007924 dimer interface [polypeptide binding]; other site 660470007925 conserved gate region; other site 660470007926 putative PBP binding loops; other site 660470007927 ABC-ATPase subunit interface; other site 660470007928 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 660470007929 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 660470007930 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 660470007931 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 660470007932 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 660470007933 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 660470007934 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 660470007935 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 660470007936 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 660470007937 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 660470007938 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 660470007939 active site 660470007940 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 660470007941 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 660470007942 active site 660470007943 multimer interface [polypeptide binding]; other site 660470007944 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 660470007945 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 660470007946 predicted active site [active] 660470007947 catalytic triad [active] 660470007948 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 660470007949 active site 660470007950 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 660470007951 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470007952 Coenzyme A binding pocket [chemical binding]; other site 660470007953 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 660470007954 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 660470007955 Transposase [DNA replication, recombination, and repair]; Region: COG5421 660470007956 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 660470007957 Fasciclin domain; Region: Fasciclin; pfam02469 660470007958 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 660470007959 Fasciclin domain; Region: Fasciclin; pfam02469 660470007960 Fasciclin domain; Region: Fasciclin; pfam02469 660470007961 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_HprK; cl00270 660470007962 active site 660470007963 metal-binding site [ion binding] 660470007964 nucleotide-binding site [chemical binding]; other site 660470007965 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 660470007966 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 660470007967 Walker A/P-loop; other site 660470007968 ATP binding site [chemical binding]; other site 660470007969 Q-loop/lid; other site 660470007970 ABC transporter signature motif; other site 660470007971 Walker B; other site 660470007972 D-loop; other site 660470007973 H-loop/switch region; other site 660470007974 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 660470007975 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 660470007976 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 660470007977 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 660470007978 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 660470007979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 660470007980 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 660470007981 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 660470007982 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 660470007983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 660470007984 active site 660470007985 phosphorylation site [posttranslational modification] 660470007986 intermolecular recognition site; other site 660470007987 dimerization interface [polypeptide binding]; other site 660470007988 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 660470007989 DNA binding site [nucleotide binding] 660470007990 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 660470007991 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 660470007992 dimer interface [polypeptide binding]; other site 660470007993 phosphorylation site [posttranslational modification] 660470007994 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 660470007995 ATP binding site [chemical binding]; other site 660470007996 Mg2+ binding site [ion binding]; other site 660470007997 G-X-G motif; other site 660470007998 transaminase; Validated; Region: PRK07324 660470007999 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 660470008000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470008001 homodimer interface [polypeptide binding]; other site 660470008002 catalytic residue [active] 660470008003 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 660470008004 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 660470008005 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 660470008006 FeS/SAM binding site; other site 660470008007 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 660470008008 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 660470008009 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 660470008010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470008011 Walker A/P-loop; other site 660470008012 ATP binding site [chemical binding]; other site 660470008013 Q-loop/lid; other site 660470008014 ABC transporter signature motif; other site 660470008015 Walker B; other site 660470008016 D-loop; other site 660470008017 H-loop/switch region; other site 660470008018 H+ Antiporter protein; Region: 2A0121; TIGR00900 660470008019 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 660470008020 putative substrate translocation pore; other site 660470008021 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 660470008022 active site 660470008023 ATP binding site [chemical binding]; other site 660470008024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470008025 DNA-binding site [nucleotide binding]; DNA binding site 660470008026 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 660470008027 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 660470008028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470008029 homodimer interface [polypeptide binding]; other site 660470008030 catalytic residue [active] 660470008031 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 660470008032 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 660470008033 putative acyl-acceptor binding pocket; other site 660470008034 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 660470008035 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 660470008036 transmembrane helices; other site 660470008037 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 660470008038 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 660470008039 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 660470008040 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 660470008041 OPT oligopeptide transporter protein; Region: OPT; cl14607 660470008042 putative oligopeptide transporter, OPT family; Region: TIGR00733 660470008043 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 660470008044 dimer interface [polypeptide binding]; other site 660470008045 conserved gate region; other site 660470008046 ABC-ATPase subunit interface; other site 660470008047 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 660470008048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470008049 ATP binding site [chemical binding]; other site 660470008050 Walker A/P-loop; other site 660470008051 Q-loop/lid; other site 660470008052 ABC transporter signature motif; other site 660470008053 Walker B; other site 660470008054 D-loop; other site 660470008055 H-loop/switch region; other site 660470008056 NIL domain; Region: NIL; pfam09383 660470008057 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 660470008058 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 660470008059 Uncharacterized conserved protein [Function unknown]; Region: COG0432 660470008060 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 660470008061 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 660470008062 trimer interface [polypeptide binding]; other site 660470008063 putative Zn binding site [ion binding]; other site 660470008064 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 660470008065 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 660470008066 active site 660470008067 metal binding site [ion binding]; metal-binding site 660470008068 DNA binding site [nucleotide binding] 660470008069 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 660470008070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470008071 Walker A/P-loop; other site 660470008072 ATP binding site [chemical binding]; other site 660470008073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 660470008074 ABC transporter signature motif; other site 660470008075 Walker B; other site 660470008076 D-loop; other site 660470008077 H-loop/switch region; other site 660470008078 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 660470008079 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 660470008080 active site 660470008081 putative substrate binding pocket [chemical binding]; other site 660470008082 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 660470008083 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 660470008084 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 660470008085 active site 660470008086 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 660470008087 SmpB-tmRNA interface; other site 660470008088 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 660470008089 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 660470008090 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 660470008091 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 660470008092 metal binding site [ion binding]; metal-binding site 660470008093 dimer interface [polypeptide binding]; other site 660470008094 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 660470008095 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 660470008096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 660470008097 DNA-binding site [nucleotide binding]; DNA binding site 660470008098 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 660470008099 FCD domain; Region: FCD; pfam07729 660470008100 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 660470008101 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 660470008102 butyrate kinase; Provisional; Region: PRK03011 660470008103 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 660470008104 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 660470008105 active site 660470008106 catalytic residues [active] 660470008107 metal binding site [ion binding]; metal-binding site 660470008108 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 660470008109 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 660470008110 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 660470008111 Walker A/P-loop; other site 660470008112 ATP binding site [chemical binding]; other site 660470008113 Q-loop/lid; other site 660470008114 ABC transporter signature motif; other site 660470008115 Walker B; other site 660470008116 D-loop; other site 660470008117 H-loop/switch region; other site 660470008118 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 660470008119 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 660470008120 Walker A/P-loop; other site 660470008121 ATP binding site [chemical binding]; other site 660470008122 Q-loop/lid; other site 660470008123 ABC transporter signature motif; other site 660470008124 Walker B; other site 660470008125 D-loop; other site 660470008126 H-loop/switch region; other site 660470008127 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 660470008128 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 660470008129 TM-ABC transporter signature motif; other site 660470008130 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 660470008131 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 660470008132 TM-ABC transporter signature motif; other site 660470008133 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 660470008134 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 660470008135 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 660470008136 Radical SAM superfamily; Region: Radical_SAM; pfam04055 660470008137 FeS/SAM binding site; other site 660470008138 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 660470008139 homotrimer interaction site [polypeptide binding]; other site 660470008140 putative active site [active] 660470008141 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 660470008142 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 660470008143 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 660470008144 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 660470008145 active site 660470008146 dimer interface [polypeptide binding]; other site 660470008147 motif 1; other site 660470008148 motif 2; other site 660470008149 motif 3; other site 660470008150 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 660470008151 anticodon binding site; other site 660470008152 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 660470008153 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 660470008154 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 660470008155 active site 660470008156 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 660470008157 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 660470008158 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 660470008159 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 660470008160 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 660470008161 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 660470008162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 660470008163 catalytic residue [active] 660470008164 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 660470008165 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470008166 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 660470008167 dimer interface [polypeptide binding]; other site 660470008168 conserved gate region; other site 660470008169 putative PBP binding loops; other site 660470008170 ABC-ATPase subunit interface; other site 660470008171 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470008172 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 660470008173 dimer interface [polypeptide binding]; other site 660470008174 conserved gate region; other site 660470008175 putative PBP binding loops; other site 660470008176 ABC-ATPase subunit interface; other site 660470008177 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 660470008178 Sulfatase; Region: Sulfatase; pfam00884 660470008179 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 660470008180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 660470008181 Coenzyme A binding pocket [chemical binding]; other site 660470008182 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 660470008183 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 660470008184 phosphodiesterase YaeI; Provisional; Region: PRK11340 660470008185 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 660470008186 putative active site [active] 660470008187 putative metal binding site [ion binding]; other site 660470008188 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 660470008189 active site 660470008190 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 660470008191 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 660470008192 Active site serine [active] 660470008193 isoaspartyl dipeptidase; Provisional; Region: PRK10657 660470008194 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 660470008195 active site 660470008196 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 660470008197 Predicted membrane protein [Function unknown]; Region: COG1971 660470008198 Domain of unknown function DUF; Region: DUF204; pfam02659 660470008199 Domain of unknown function DUF; Region: DUF204; pfam02659 660470008200 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 660470008201 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 660470008202 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 660470008203 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 660470008204 putative active site [active] 660470008205 putative NTP binding site [chemical binding]; other site 660470008206 putative nucleic acid binding site [nucleotide binding]; other site 660470008207 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 660470008208 Transcriptional regulators [Transcription]; Region: PurR; COG1609 660470008209 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 660470008210 DNA binding site [nucleotide binding] 660470008211 domain linker motif; other site 660470008212 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 660470008213 ligand binding site [chemical binding]; other site 660470008214 dimerization interface [polypeptide binding]; other site 660470008215 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 660470008216 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 660470008217 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 660470008218 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 660470008219 dimer interface [polypeptide binding]; other site 660470008220 conserved gate region; other site 660470008221 putative PBP binding loops; other site 660470008222 ABC-ATPase subunit interface; other site 660470008223 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 660470008224 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 660470008225 dimer interface [polypeptide binding]; other site 660470008226 conserved gate region; other site 660470008227 putative PBP binding loops; other site 660470008228 ABC-ATPase subunit interface; other site 660470008229 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 660470008230 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 660470008231 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 660470008232 Uncharacterized conserved protein [Function unknown]; Region: COG3391 660470008233 NHL repeat; Region: NHL; pfam01436 660470008234 NHL repeat; Region: NHL; pfam01436 660470008235 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 660470008236 homodimer interface [polypeptide binding]; other site 660470008237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 660470008238 catalytic residue [active] 660470008239 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 660470008240 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 660470008241 ligand binding site [chemical binding]; other site 660470008242 NAD binding site [chemical binding]; other site 660470008243 dimerization interface [polypeptide binding]; other site 660470008244 catalytic site [active] 660470008245 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 660470008246 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 660470008247 Replication initiation factor; Region: Rep_trans; pfam02486