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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_0515 [new locus tag: NWMN_RS02990 ]
  • pan locus tag?: SAUPAN002325000
  • symbol: capD
  • pan gene symbol?: —
  • synonym:
  • product: polysaccharide biosynthesis protein CapD

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_0515 [new locus tag: NWMN_RS02990 ]
  • symbol: capD
  • product: polysaccharide biosynthesis protein CapD
  • replicon: chromosome
  • strand: +
  • coordinates: 594401..595366
  • length: 966
  • 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
    ATGAAAAAAATTATGATTACTGGTGCATTAGGACAAATTGGTACAGAATTAGTTGTTAAG
    TGCAGAGAAATTTATGGGACAGATAATGTTCTTGCTACAGATATTAGGGAACCTGAAGCA
    GACTCACCTGTACAAAATGGACCATTTGAAATCTTAGACGTAACAGATCGTGACCGTATG
    TTTGAGTTAGTTAGGGACTTTGAAGCGGATAGTCTAATGCATATGGCAGCATTATTATCA
    GCAACTGCTGAGAAAAATCCAATTCTAGCTTGGGATTTAAATATGGGTGGATTAATGAAT
    GCATTAGAAGCTGCAAGAACTTATAATTTGCACTTTTTCACACCAAGTTCAATTGGTGCA
    TTTGGAGACTCAACTCCTAAAGTTAATACGCCACAAGTAACGATTCAGCAACCTACGACA
    ATGTATGGTGTAAATAAAGTAGCTGGAGAATTATTGTGTCAATACTATTTCAAACGTTTT
    GGTGTAGATACAAGAAGTGTTAGATTCCCAGGTTTAATCTCGCATGTTAAAGAGCCAGGT
    GGCGGTACTACAGACTATGCTGTTGAAATATACTTCAAAGCAGTAAGAGAGGGTCATTAT
    ACAAGCTTCATAGATAAAGGCACGTATATGGATATGATGTATATGGATGATGCAATTGAA
    GCAATTATTAAACTTATGGAAGCAGACGACGCTAAATTAGAAACTAGAAATGGTTATAAT
    TTGAGCGCAATGAGTTTTGATCCAGAGATGGTAAAAGAAGCAATTCAAGAATACTATCCC
    AATTTTACATTAGATTACGATGTTGATCCTATTAGACAAGGTATCGCTAATAGTTGGCCG
    GATTCTATTGATACAAGCTGTTCACGTGGCGAATGGGGATTTGATCCTAAATATGATTTA
    GCGAGCATGACTAAATTAATGTTAGAAGCTATTGAACAAAAAGATACTGTTAAAAATAAT
    AACTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    966

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_0515 [new locus tag: NWMN_RS02990 ]
  • symbol: CapD
  • description: polysaccharide biosynthesis protein CapD
  • length: 321
  • theoretical pI: 4.35464
  • theoretical MW: 36052.7
  • GRAVY: -0.311526

⊟Function[edit | edit source]

  • ⊞TIGRFAM:
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides ADP-glyceromanno-heptose 6-epimerase (TIGR02197; EC 5.1.3.20; HMM-score: 44.8)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides dTDP-4-dehydrorhamnose reductase (TIGR01214; EC 1.1.1.133; HMM-score: 39.5)
    and 5 more
    Metabolism Energy metabolism Sugars UDP-glucose 4-epimerase GalE (TIGR01179; EC 5.1.3.2; HMM-score: 30.9)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides dTDP-glucose 4,6-dehydratase (TIGR01181; EC 4.2.1.46; HMM-score: 30.1)
    NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family (TIGR04180; HMM-score: 21.6)
    UDP-N-acetylglucosamine 4,6-dehydratase (inverting) (TIGR03589; EC 4.2.1.115; HMM-score: 21.5)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides CDP-glucose 4,6-dehydratase (TIGR02622; EC 4.2.1.45; HMM-score: 20)
  • ⊞TheSEED  :
    • L-threonine 3-dehydrogenase (EC 1.1.1.103)
    Amino Acids and Derivatives Alanine, serine, and glycine Glycine Biosynthesis  L-threonine 3-dehydrogenase (EC 1.1.1.103)
    and 1 more
    Amino Acids and Derivatives Lysine, threonine, methionine, and cysteine Threonine degradation  L-threonine 3-dehydrogenase (EC 1.1.1.103)
  • ⊞PFAM:
    NADP_Rossmann (CL0063) Epimerase; NAD dependent epimerase/dehydratase family (PF01370; HMM-score: 93.7)
    and 5 more
    GDP_Man_Dehyd; GDP-mannose 4,6 dehydratase (PF16363; HMM-score: 57.1)
    RmlD_sub_bind; RmlD substrate binding domain (PF04321; HMM-score: 45.2)
    Polysacc_synt_2; Polysaccharide biosynthesis protein (PF02719; HMM-score: 34.7)
    3Beta_HSD; 3-beta hydroxysteroid dehydrogenase/isomerase family (PF01073; HMM-score: 21.9)
    NAD_binding_4; Male sterility protein (PF07993; HMM-score: 17.2)

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

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

⊟Localization[edit | edit source]

  • ⊞PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 0
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.8955
    • Cytoplasmic Membrane Score: 0.043
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0614
  • ⊞LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: 0
    • Predicted Cleavage Site: No CleavageSite
  • ⊞SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.08838
    • TAT(Tat/SPI): 0.000732
    • LIPO(Sec/SPII): 0.188772
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKKIMITGALGQIGTELVVKCREIYGTDNVLATDIREPEADSPVQNGPFEILDVTDRDRMFELVRDFEADSLMHMAALLSATAEKNPILAWDLNMGGLMNALEAARTYNLHFFTPSSIGAFGDSTPKVNTPQVTIQQPTTMYGVNKVAGELLCQYYFKRFGVDTRSVRFPGLISHVKEPGGGTTDYAVEIYFKAVREGHYTSFIDKGTYMDMMYMDDAIEAIIKLMEADDAKLETRNGYNLSAMSFDPEMVKEAIQEYYPNFTLDYDVDPIRQGIANSWPDSIDTSCSRGEWGFDPKYDLASMTKLMLEAIEQKDTVKNNN

⊟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:
  • ⊟interaction partners:
    NWMN_2534(arcA)arginine deiminase  [1] (data from MRSA252)
    NWMN_0961(pdhC)branched-chain alpha-keto acid dehydrogenase subunit E2  [1] (data from MRSA252)
    NWMN_1592(pykA)pyruvate kinase  [1] (data from MRSA252)
    NWMN_1166(rpsB)30S ribosomal protein S2  [1] (data from MRSA252)
    NWMN_2146(rpsC)30S ribosomal protein S3  [1] (data from MRSA252)
    NWMN_2135(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

⊟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 1.4 1.5 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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