From AureoWiki
Jump to navigation Jump to search

NCBI: 26-AUG-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA1905 [new locus tag: SA_RS10965 ]
  • pan locus tag?: SAUPAN005394000
  • symbol: atpD
  • pan gene symbol?: atpD
  • synonym:
  • product: ATP synthase F0F1 subunit beta

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SA1905 [new locus tag: SA_RS10965 ]
  • symbol: atpD
  • product: ATP synthase F0F1 subunit beta
  • replicon: chromosome
  • strand: -
  • coordinates: 2155599..2157011
  • length: 1413
  • essential: no DEG 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
    ATGGGAATTGGCCGTGTAACTCAAGTTATGGGTCCTGTAATTGATGTTCGATTTGAACAT
    AACGAAGTTCCTAAAATTAATAACGCCTTGGTTATTGATGTGCCTAAAGAAGAAGGTACA
    ATACAACTAACATTAGAAGTTGCGCTGCAATTAGGTGACGACGTTGTTCGTACAATTGCG
    ATGGATTCAACTGATGGTGTCCAAAGAGGCATGGATGTAAAAGATACAGGCAAAGAAATT
    AGTGTACCTGTTGGTGACGAAACATTAGGTCGTGTATTTAATGTACTAGGTGAAACAATT
    GACCTTAAAGAAGAAATTAGTGATTCTGTTCGCCGCGATCCTATCCATCGTCAAGCACCA
    GCATTCGATGAACTTTCAACAGAAGTTCAAATTTTAGAAACAGGTATTAAAGTAGTAGAT
    TTACTAGCACCTTATATTAAAGGTGGTAAAATCGGATTGTTCGGTGGTGCCGGTGTAGGT
    AAAACAGTATTAATCCAAGAATTAATTAACAACATCGCTCAAGAGCACGGTGGTATTTCT
    GTATTCGCCGGTGTAGGTGAACGTACTCGTGAAGGTAACGATTTATACTTCGAAATGAGT
    GACAGTGGTGTAATTAAGAAAACAGCCATGGTATTCGGGCAAATGAATGAGCCACCTGGT
    GCACGTATGCGTGTTGCATTATCTGGTTTAACAATGGCTGAATATTTCCGTGACGAACAA
    GGTCAAGACGTATTATTATTCATCGATAACATTTTCAGATTTACACAAGCTGGTTCTGAG
    GTATCTGCATTATTAGGTCGTATGCCTTCTGCAGTAGGTTACCAACCAACACTTGCTACT
    GAAATGGGACAATTACAAGAACGTATTACGTCTACAACAAAAGGATCAGTTACTTCTATT
    CAAGCGGTATTCGTACCTGCCGATGACTATACTGACCCAGCGCCTGCGACAGCGTTTGCC
    CATTTAGATGCAACTACTAACTTAGAACGTAAATTAACTGAAATGGGTATTTATCCAGCC
    GTGGATCCATTAGCGTCTACATCAAGAGCATTGGAACCATCAATTGTAGGTCAAGAACAT
    TATGAAGTAGCTCGTGATGTACAATCAACACTTCAAAAATACCGTGAATTGCAAGATATC
    ATTGCTATCTTAGGTATGGACGAATTATCTGATGAAGATAAACAAACAGTTGAACGCGCA
    CGTAGAATTCAATTCTTCTTATCTCAAAACTTCCACGTAGCGGAACAATTTACTGGTCAA
    AAAGGTTCTTATGTACCTGTTAAGACAACAGTTGCAAACTTTAAAGATATCTTAGATGGT
    AAATATGACCATATTCCAGAAGATGCATTCCGTTTAGTTGGTAGCATGGATGATGTTATT
    GCAAAAGCTAAAGATATGGGTGTTGAAGTATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1413

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SA1905 [new locus tag: SA_RS10965 ]
  • symbol: AtpD
  • description: ATP synthase F0F1 subunit beta
  • length: 470
  • theoretical pI: 4.42228
  • theoretical MW: 51399.9
  • GRAVY: -0.161915

⊟Function[edit | edit source]

  • reaction:
    EC 3.6.3.14?  ExPASy
    H+-transporting two-sector ATPase ATP + H2O + H+(In) = ADP + phosphate + H+(Out)
  • TIGRFAM:
    Metabolism Energy metabolism ATP-proton motive force interconversion ATP synthase F1, beta subunit (TIGR01039; EC 3.6.3.14; HMM-score: 844.9)
    and 16 more
    alternate F1F0 ATPase, F1 subunit beta (TIGR03305; EC 3.6.3.-; HMM-score: 586.7)
    Metabolism Energy metabolism ATP-proton motive force interconversion ATPase, FliI/YscN family (TIGR01026; EC 3.6.3.14; HMM-score: 234.1)
    Cellular processes Cellular processes Pathogenesis type III secretion apparatus H+-transporting two-sector ATPase (TIGR02546; EC 3.6.3.14; HMM-score: 233.1)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type III secretion apparatus H+-transporting two-sector ATPase (TIGR02546; EC 3.6.3.14; HMM-score: 233.1)
    Cellular processes Cellular processes Chemotaxis and motility flagellar protein export ATPase FliI (TIGR03496; EC 3.6.3.14; HMM-score: 229.2)
    flagellar protein export ATPase FliI (TIGR03498; EC 3.6.3.14; HMM-score: 226.1)
    Cellular processes Cellular processes Chemotaxis and motility flagellar protein export ATPase FliI (TIGR03497; EC 3.6.3.14; HMM-score: 216)
    Metabolism Energy metabolism ATP-proton motive force interconversion ATP synthase archaeal, B subunit (TIGR01041; EC 3.6.3.14; HMM-score: 143.4)
    Metabolism Energy metabolism ATP-proton motive force interconversion ATP synthase archaeal, A subunit (TIGR01043; EC 3.6.3.14; HMM-score: 134.6)
    alternate F1F0 ATPase, F1 subunit alpha (TIGR03324; EC 3.6.3.-; HMM-score: 133.2)
    Metabolism Energy metabolism ATP-proton motive force interconversion ATP synthase F1, alpha subunit (TIGR00962; EC 3.6.3.14; HMM-score: 132.4)
    Metabolism Transport and binding proteins Cations and iron carrying compounds V-type ATPase, A subunit (TIGR01042; EC 3.6.3.14; HMM-score: 121.4)
    Metabolism Transport and binding proteins Cations and iron carrying compounds V-type ATPase, B subunit (TIGR01040; EC 3.6.3.14; HMM-score: 103)
    Genetic information processing Transcription Transcription factors transcription termination factor Rho (TIGR00767; EC 3.6.4.-; HMM-score: 41.1)
    Genetic information processing Protein synthesis Translation factors ribosome small subunit-dependent GTPase A (TIGR00157; EC 3.6.-.-; HMM-score: 13)
    Genetic information processing Protein synthesis tRNA and rRNA base modification pseudouridine synthase Rlu family protein, TIGR01621 (TIGR01621; EC 5.4.99.-; HMM-score: 11.9)
  • TheSEED  :
    • ATP synthase beta chain (EC 7.1.2.2)
    Respiration ATP synthases F0F1-type ATP synthase  ATP synthase beta chain (EC 3.6.3.14)
  • PFAM:
    P-loop_NTPase (CL0023) ATP-synt_ab; ATP synthase alpha/beta family, nucleotide-binding domain (PF00006; HMM-score: 226.3)
    and 12 more
    HAS-barrel (CL0275) ATP-synt_ab_N; ATP synthase alpha/beta family, beta-barrel domain (PF02874; HMM-score: 79.1)
    P-loop_NTPase (CL0023) RsgA_GTPase; RsgA GTPase (PF03193; HMM-score: 23.7)
    AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 19.3)
    ATPase_2; ATPase domain predominantly from Archaea (PF01637; HMM-score: 16.9)
    ABC_tran; ABC transporter (PF00005; HMM-score: 15.8)
    NACHT; NACHT domain (PF05729; HMM-score: 14.9)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 14.1)
    AAA_19; AAA domain (PF13245; HMM-score: 14)
    RNA_helicase; RNA helicase (PF00910; HMM-score: 13.6)
    ATPase; KaiC (PF06745; HMM-score: 11.9)
    NB-ARC; NB-ARC domain (PF00931; HMM-score: 10.9)
    TrwB_AAD_bind; Type IV secretion-system coupling protein DNA-binding domain (PF10412; HMM-score: 10.9)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic Membrane
    • Cytoplasmic Score: 1.05
    • Cytoplasmic Membrane Score: 8.78
    • Cellwall Score: 0.08
    • Extracellular Score: 0.09
    • Internal Helices: 0
  • 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): 0.003037
    • TAT(Tat/SPI): 0.000134
    • LIPO(Sec/SPII): 0.000342
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MGIGRVTQVMGPVIDVRFEHNEVPKINNALVIDVPKEEGTIQLTLEVALQLGDDVVRTIAMDSTDGVQRGMDVKDTGKEISVPVGDETLGRVFNVLGETIDLKEEISDSVRRDPIHRQAPAFDELSTEVQILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELINNIAQEHGGISVFAGVGERTREGNDLYFEMSDSGVIKKTAMVFGQMNEPPGARMRVALSGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITSTTKGSVTSIQAVFVPADDYTDPAPATAFAHLDATTNLERKLTEMGIYPAVDPLASTSRALEPSIVGQEHYEVARDVQSTLQKYRELQDIIAILGMDELSDEDKQTVERARRIQFFLSQNFHVAEQFTGQKGSYVPVKTTVANFKDILDGKYDHIPEDAFRLVGSMDDVIAKAKDMGVEV

⊟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:
    SA1533(ackA)acetate kinase  [1] (data from MRSA252)
    SA0162(aldA)hypothetical protein  [1] (data from MRSA252)
    SA2428(arcA)arginine deiminase  [1] (data from MRSA252)
    SA1984(asp23)alkaline shock protein 23  [1] (data from MRSA252)
    SA1046(carB)carbamoyl phosphate synthase large subunit  [1] (data from MRSA252)
    SA1517(citC)isocitrate dehydrogenase  [1] (data from MRSA252)
    SA1409(dnaK)molecular chaperone DnaK  [1] (data from MRSA252)
    SA0915(folD)bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase  [1] (data from MRSA252)
    SA1029(ftsZ)cell division protein FtsZ  [1] (data from MRSA252)
    SA0505(fus)elongation factor G  [1] (data from MRSA252)
    SA1715(gatB)aspartyl/glutamyl-tRNA amidotransferase subunit B  [1] (data from MRSA252)
    SA1150(glnA)glutamine-ammonia ligase  [1] (data from MRSA252)
    SA1305(hu)DNA-binding protein II  [1] (data from MRSA252)
    SA2400(mqo2)malate:quinone oxidoreductase  [1] (data from MRSA252)
    SA0943-1(pdhA)pyruvate dehydrogenase E1 component subunit alpha  [1] (data from MRSA252)
    SA0944(pdhB)pyruvate dehydrogenase E1 component subunit beta  [1] (data from MRSA252)
    SA0945(pdhC)branched-chain alpha-keto acid dehydrogenase E2 subunit  [1] (data from MRSA252)
    SA0946(pdhD)dihydrolipoamide dehydrogenase  [1] (data from MRSA252)
    SA1938(pdp)pyrimidine-nucleoside phosphorylase  [1] (data from MRSA252)
    SA0218(pflB)formate acetyltransferase  [1] (data from MRSA252)
    SA1520(pykA)pyruvate kinase  [1] (data from MRSA252)
    SA2044(rplB)50S ribosomal protein L2  [1] (data from MRSA252)
    SA2035(rplE)50S ribosomal protein L5  [1] (data from MRSA252)
    SA2033(rplF)50S ribosomal protein L6  [1] (data from MRSA252)
    SA0497(rplJ)50S ribosomal protein L10  [1] (data from MRSA252)
    SA2040(rplP)50S ribosomal protein L16  [1] (data from MRSA252)
    SA1473(rplU)50S ribosomal protein L21  [1] (data from MRSA252)
    SA2042(rplV)50S ribosomal protein L22  [1] (data from MRSA252)
    SA1099(rpsB)30S ribosomal protein S2  [1] (data from MRSA252)
    SA2041(rpsC)30S ribosomal protein S3  [1] (data from MRSA252)
    SA2031(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    SA2024(rpsK)30S ribosomal protein S11  [1] (data from MRSA252)
    SA0503(rpsL)30S ribosomal protein S12  [1] (data from MRSA252)
    SA1245(sucA)2-oxoglutarate dehydrogenase E1  [1] (data from MRSA252)
    SA0506(tuf)elongation factor Tu  [1] (data from MRSA252)
    SA0477pyridoxal biosynthesis lyase PdxS  [1] (data from MRSA252)
    SA0802hypothetical protein  [1] (data from MRSA252)
    SA0829hypothetical protein  [1] (data from MRSA252)
    SA1271threonine dehydratase  [1] (data from MRSA252)
    SA1532hypothetical protein  [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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 1.26 1.27 1.28 1.29 1.30 1.31 1.32 1.33 1.34 1.35 1.36 1.37 1.38 1.39 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]

Alexander Scherl, Patrice François, Manuela Bento, Jacques M Deshusses, Yvan Charbonnier, Véronique Converset, Antoine Huyghe, Nadia Walter, Christine Hoogland, Ron D Appel, Jean-Charles Sanchez, Catherine G Zimmermann-Ivol, Garry L Corthals, Denis F Hochstrasser, Jacques Schrenzel
Correlation of proteomic and transcriptomic profiles of Staphylococcus aureus during the post-exponential phase of growth.
J Microbiol Methods: 2005, 60(2);247-57
[PubMed:15590099] [WorldCat.org] [DOI] (P p)

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SA1905&oldid=93702"