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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1417 [new locus tag: NWMN_RS08000 ]
  • pan locus tag?: SAUPAN004063000
  • symbol: gnd
  • pan gene symbol?: gnd
  • synonym:
  • product: 6-phosphogluconate dehydrogenase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_1417 [new locus tag: NWMN_RS08000 ]
  • symbol: gnd
  • product: 6-phosphogluconate dehydrogenase
  • replicon: chromosome
  • strand: -
  • coordinates: 1586478..1587884
  • length: 1407
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    ATGACACAACAAATTGGAGTTATTGGTTTAGCCGTTATGGGTAAAAACCTAGCTTGGAAT
    ATTGAATCACGCGGATATAGTGTATCTGTATTTAACCGCTCAAGTGAAAAAACTGATTTA
    ATGGTTGAAGAATCAAAAGGGAAAAATATTCATCCAACGTATTCATTGGAAGAATTTGTT
    AATTCTTTAGAAAAACCACGTAAAATTTTATTAATGGTTCAAGCAGGTAAAGCTACGGAC
    GCAACGATTGATAGTTTGTTACCTTTATTAGATGATGGAGATATTTTAATTGATGGTGGT
    AATACAAACTATCAAGATACTATCAGACGTAATAAAGCATTAGCACAAAGTGCAATCAAC
    TTTATTGGTATGGGCGTTTCTGGTGGTGAAATTGGAGCGTTAACTGGTCCGTCATTAATG
    CCGGGTGGACAAGAAGAAGCTTATAACAAAGTTGCAGATATTCTTGATGCAATTGCTGCA
    AAGGCAAAAGACGGTGCTTCATGTGTTACTTATATTGGACCTAATGGTGCTGGACACTAT
    GTGAAAATGGTACACAATGGTATCGAATATGCTGACATGCAATTAATTGCAGAAAGTTAT
    GCTATGATGAAAGAATTATTAGGCATGTCTCATGAAGACATTGCTCAAACGTTCAAAGAC
    TGGAATGCTGGTGAATTAGAAAGTTATTTAATTGAAATCACTGGTGATATTTTCATGAAA
    TTAGATGAAAATAAAGAAGCATTAGTTGAAAAAATTCTTGATACTGCAGGTCAAAAAGGT
    ACAGGAAAATGGACTTCAATTAACGCATTAGAATTAGGTATTCCATTAACAATCATTACT
    GAATCTGTATTTGCACGTTTTATCTCTTCAATCAAAGAAGAGCGCGTAAATGCTTCTAAA
    GAATTAAATGGTCCAAAAGCATCATTTGATGGTGACAAGAAAGACTTTTTAGAAAAAATT
    CGTAAAGCATTATATATGAGTAAAATTTGTTCTTATGCACAAGGTTTCGCGCAAATGCGT
    AAAGCAAGTGAAGATAATGAATGGAATTTAAAACTTGGTGATTTAGCTATGATTTGGAGA
    GAAGGTTGCATTATCCGTGCACAATTCTTACAAAAGATCAAAGATGCTTACGATAATAAT
    CCAGGATTACAAAACTTATTGCTAGATCCTTACTTTAAAAACATCGTTACTGAATATCAA
    GATGCGTTACGTGATGTTGTCGCAACTGGTGTTCAAAATGGTGTACCAACACCTGGTTTC
    TCATCAAGTATTAATTACTATGATAGTTACCGTGCTGCTGATTTACCTGCAAACTTAATT
    CAAGCACAACGTGACTACTTCGGTGCTCATACGTACGAAAGAAAAGATAAAGAAGGCGTA
    TTCCATACACAATGGATTGAAGAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1407

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_1417 [new locus tag: NWMN_RS08000 ]
  • symbol: Gnd
  • description: 6-phosphogluconate dehydrogenase
  • length: 468
  • theoretical pI: 4.75082
  • theoretical MW: 51802.4
  • GRAVY: -0.300214

⊟Function[edit | edit source]

  • ⊞reaction:
    EC 1.1.1.44?  ExPASy
    Phosphogluconate dehydrogenase (NADP+-dependent, decarboxylating) 6-phospho-D-gluconate + NADP+ = D-ribulose 5-phosphate + CO2 + NADPH
  • ⊞TIGRFAM:
    Metabolism Energy metabolism Pentose phosphate pathway 6-phosphogluconate dehydrogenase (decarboxylating) (TIGR00873; EC 1.1.1.44; HMM-score: 733.9)
    and 4 more
    Metabolism Energy metabolism Pentose phosphate pathway 6-phosphogluconate dehydrogenase (decarboxylating) (TIGR00872; EC 1.1.1.44; HMM-score: 229.9)
    2-hydroxy-3-oxopropionate reductase (TIGR01505; EC 1.1.1.60; HMM-score: 56)
    Metabolism Energy metabolism Amino acids and amines 3-hydroxyisobutyrate dehydrogenase (TIGR01692; EC 1.1.1.31; HMM-score: 49.7)
    Metabolism Central intermediary metabolism Phosphorus compounds polyphosphate:AMP phosphotransferase (TIGR03708; EC 2.7.4.-; HMM-score: 12.8)
  • ⊞TheSEED  :
    • 6-phosphogluconate dehydrogenase [decarboxylating] (EC 1.1.1.44)
    Carbohydrates Central carbohydrate metabolism Pentose phosphate pathway  6-phosphogluconate dehydrogenase, decarboxylating (EC 1.1.1.44)
    and 2 more
    Carbohydrates Monosaccharides D-gluconate and ketogluconates metabolism  6-phosphogluconate dehydrogenase, decarboxylating (EC 1.1.1.44)
    Carbohydrates One-carbon Metabolism Formaldehyde assimilation: Ribulose monophosphate pathway  6-phosphogluconate dehydrogenase, decarboxylating (EC 1.1.1.44)
  • ⊞PFAM:
    6PGD_C (CL0106) 6PGD; 6-phosphogluconate dehydrogenase, C-terminal domain (PF00393; HMM-score: 452.9)
    and 6 more
    NADP_Rossmann (CL0063) NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase (PF03446; HMM-score: 170.7)
    Shikimate_DH; Shikimate / quinate 5-dehydrogenase (PF01488; HMM-score: 18.8)
    2-Hacid_dh_C; D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain (PF02826; HMM-score: 16)
    F420_oxidored; NADP oxidoreductase coenzyme F420-dependent (PF03807; HMM-score: 15.2)
    no clan defined DUF2674; Protein of unknown function (DUF2674) (PF10879; HMM-score: 14.1)
    NADP_Rossmann (CL0063) 3HCDH_N; 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain (PF02737; HMM-score: 13.7)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • ⊞PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helices: 0
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.6976
    • Cytoplasmic Membrane Score: 0.0102
    • Cell wall & surface Score: 0.0027
    • Extracellular Score: 0.2895
  • ⊞LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • ⊞SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.0299
    • TAT(Tat/SPI): 0.001479
    • LIPO(Sec/SPII): 0.007243
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTQQIGVIGLAVMGKNLAWNIESRGYSVSVFNRSSEKTDLMVEESKGKNIHPTYSLEEFVNSLEKPRKILLMVQAGKATDATIDSLLPLLDDGDILIDGGNTNYQDTIRRNKALAQSAINFIGMGVSGGEIGALTGPSLMPGGQEEAYNKVADILDAIAAKAKDGASCVTYIGPNGAGHYVKMVHNGIEYADMQLIAESYAMMKELLGMSHEDIAQTFKDWNAGELESYLIEITGDIFMKLDENKEALVEKILDTAGQKGTGKWTSINALELGIPLTIITESVFARFISSIKEERVNASKELNGPKASFDGDKKDFLEKIRKALYMSKICSYAQGFAQMRKASEDNEWNLKLGDLAMIWREGCIIRAQFLQKIKDAYDNNPGLQNLLLDPYFKNIVTEYQDALRDVVATGVQNGVPTPGFSSSINYYDSYRAADLPANLIQAQRDYFGAHTYERKDKEGVFHTQWIEE

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • ⊟interaction partners:
    NWMN_0959(phdA)pyruvate dehydrogenase E1 component, alpha subunit  [1] (data from MRSA252)
    NWMN_2146(rpsC)30S ribosomal protein S3  [1] (data from MRSA252)
    NWMN_2119(rpsI)30S ribosomal protein S9  [1] (data from MRSA252)
    NWMN_1382DNA-binding protein HU  [1] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊞Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊞Other Information[edit | edit source]

You are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Jump up to: 1.0 1.1 1.2 1.3 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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