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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1568 [new locus tag: NWMN_RS08790 ]
  • pan locus tag?: SAUPAN004290000
  • symbol: clpX
  • pan gene symbol?: clpX
  • synonym:
  • product: ATP-dependent protease ATP-binding subunit ClpX

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_1568 [new locus tag: NWMN_RS08790 ]
  • symbol: clpX
  • product: ATP-dependent protease ATP-binding subunit ClpX
  • replicon: chromosome
  • strand: -
  • coordinates: 1734673..1735935
  • length: 1263
  • 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
    ATGTTTAAATTCAATGAAGATGAAGAAAATTTGAAATGCTCTTTCTGCGGAAAAGACCAA
    GATCAAGTAAAAAAACTTGTAGCAGGAAGTGGTGTATATATTTGTAATGAGTGTATTGAA
    TTATGCTCAGAAATCGTCGAAGAAGAATTAGCTCAAAACACTTCTGAAGCGATGACAGAA
    TTACCTACTCCTAAAGAAATTATGGATCATTTAAACGAATATGTTATTGGTCAAGAAAAA
    GCTAAAAAATCTTTAGCTGTAGCTGTTTATAACCACTATAAGCGTATTCAACAATTAGGA
    CCAAAAGAAGATGATGTTGAATTACAAAAAAGTAACATTGCATTAATTGGGCCAACAGGT
    AGTGGTAAAACATTATTAGCTCAAACCTTAGCCAAGACGTTGAATGTACCATTTGCAATT
    GCAGATGCGACAAGTTTAACTGAAGCTGGTTATGTAGGCGATGATGTTGAAAATATCTTG
    TTGAGATTAATTCAAGCAGCTGACTTTGACATTGATAAAGCCGAAAAAGGTATTATTTAT
    GTAGATGAAATTGATAAAATTGCACGTAAATCTGAAAACACATCTATAACACGTGACGTT
    TCAGGTGAAGGTGTTCAACAAGCATTGCTTAAAATCTTAGAAGGTACGACTGCAAGTGTT
    CCGCCACAAGGTGGACGCAAACATCCAAACCAAGAAATGATTCAAATTGATACAACAAAT
    ATCTTATTTATTCTTGGTGGTGCCTTTGATGGTATTGAAGAAGTGATTAAGCGCCGTCTT
    GGTGAAAAAGTTATTGGTTTCTCAAGCAATGAAGCTGATAAATATGACGAACAAGCATTA
    TTAGCACAAATTCGCCCAGAAGATTTGCAAGCCTATGGTTTGATTCCTGAATTTATCGGA
    CGTGTGCCAATTGTAGCTAATTTAGAAACATTAGATGTAACTGCGTTGAAAAACATCTTA
    ACGCAACCTAAAAATGCACTTGTGAAACAATATACTAAAATGCTGGAATTAGATGATGTG
    GATTTAGAGTTCACTGAAGAAGCTTTATCAGCAATTAGTGAAAAAGCAATTGAAAGAAAA
    ACAGGTGCGCGTGGTTTACGTTCAATCATAGAAGAATCGTTAATCGATATTATGTTTGAT
    GTGCCTTCTAACGAAAATGTAACGAAGGTAGTTATTACAGCACAAACAATTAATGAAGAA
    ACTGAACCAGAACTATACGACGCAGAAGGCAATTTAATTAATAATAGTAAAACATCAGCT
    TAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1263

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_1568 [new locus tag: NWMN_RS08790 ]
  • symbol: ClpX
  • description: ATP-dependent protease ATP-binding subunit ClpX
  • length: 420
  • theoretical pI: 4.26448
  • theoretical MW: 46297.2
  • GRAVY: -0.265238

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent Clp protease, ATP-binding subunit ClpX (TIGR00382; HMM-score: 660.9)
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent Clp protease, ATP-binding subunit ClpX (TIGR00382; HMM-score: 660.9)
    and 25 more
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent protease HslVU, ATPase subunit (TIGR00390; HMM-score: 212.6)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent Clp protease ATP-binding subunit ClpA (TIGR02639; HMM-score: 46.1)
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent chaperone protein ClpB (TIGR03346; HMM-score: 36.9)
    Cellular processes Cellular processes Pathogenesis type VI secretion ATPase, ClpV1 family (TIGR03345; HMM-score: 36.2)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VI secretion ATPase, ClpV1 family (TIGR03345; HMM-score: 36.2)
    AAA family ATPase, CDC48 subfamily (TIGR01243; HMM-score: 31.4)
    26S proteasome subunit P45 family (TIGR01242; HMM-score: 30)
    Cellular processes Cellular processes Cell division ATP-dependent metallopeptidase HflB (TIGR01241; EC 3.4.24.-; HMM-score: 27.4)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent metallopeptidase HflB (TIGR01241; EC 3.4.24.-; HMM-score: 27.4)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair Holliday junction DNA helicase RuvB (TIGR00635; EC 3.6.4.12; HMM-score: 25.4)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides endopeptidase La (TIGR00763; EC 3.4.21.53; HMM-score: 23.8)
    Cellular processes Cellular processes Chemotaxis and motility flagellar biosynthesis protein FlhF (TIGR03499; HMM-score: 23.2)
    Unknown function General Mg chelatase-like protein (TIGR00368; HMM-score: 22.2)
    nicotinamide-nucleotide adenylyltransferase (TIGR01526; EC 2.7.7.1; HMM-score: 21.3)
    Cellular processes Cellular processes Other gas vesicle protein GvpN (TIGR02640; HMM-score: 20.1)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides putative ATP-dependent protease (TIGR00764; HMM-score: 16.9)
    Hypothetical proteins Conserved TIGR00270 family protein (TIGR00270; HMM-score: 16.5)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair orc1/cdc6 family replication initiation protein (TIGR02928; HMM-score: 15.8)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Nucleotide and nucleoside interconversions cytidylate kinase (TIGR00017; EC 2.7.4.14; HMM-score: 14.5)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VII secretion AAA-ATPase EccA (TIGR03922; HMM-score: 13.1)
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA dimethylallyltransferase (TIGR00174; EC 2.5.1.75; HMM-score: 12.8)
    Metabolism Transport and binding proteins Anions phosphate ABC transporter, ATP-binding protein (TIGR00972; EC 3.6.3.27; HMM-score: 12.8)
    thiol reductant ABC exporter, CydC subunit (TIGR02868; HMM-score: 12.8)
    Metabolism Transport and binding proteins Anions sulfate ABC transporter, ATP-binding protein (TIGR00968; EC 3.6.3.25; HMM-score: 12.1)
    carbohydrate kinase, thermoresistant glucokinase family (TIGR01313; EC 2.7.1.-; HMM-score: 12.1)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    P-loop_NTPase (CL0023) AAA_2; AAA domain (Cdc48 subfamily) (PF07724; HMM-score: 165)
    and 28 more
    Zn_Beta_Ribbon (CL0167) zf-C4_ClpX; ClpX C4-type zinc finger (PF06689; HMM-score: 67.6)
    P-loop_NTPase (CL0023) AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 59.7)
    no clan defined ClpB_D2-small; C-terminal, D2-small domain, of ClpB protein (PF10431; HMM-score: 59.7)
    P-loop_NTPase (CL0023) AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 27.8)
    AAA_22; AAA domain (PF13401; HMM-score: 27.7)
    RuvB_N; Holliday junction DNA helicase ruvB N-terminus (PF05496; HMM-score: 26)
    Mg_chelatase; Magnesium chelatase, subunit ChlI (PF01078; HMM-score: 22.4)
    Sigma54_activat; Sigma-54 interaction domain (PF00158; HMM-score: 18.8)
    AAA_18; AAA domain (PF13238; HMM-score: 18.4)
    MCM; MCM2/3/5 family (PF00493; HMM-score: 18.3)
    IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 17.7)
    TsaE; Threonylcarbamoyl adenosine biosynthesis protein TsaE (PF02367; HMM-score: 17.7)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 17)
    Sigma54_activ_2; Sigma-54 interaction domain (PF14532; HMM-score: 16.8)
    AAA_14; AAA domain (PF13173; HMM-score: 16.7)
    ABC_tran; ABC transporter (PF00005; HMM-score: 16.5)
    NACHT; NACHT domain (PF05729; HMM-score: 15.8)
    AAA_24; AAA domain (PF13479; HMM-score: 15.1)
    AAA_28; AAA domain (PF13521; HMM-score: 14.1)
    T2SSE; Type II/IV secretion system protein (PF00437; HMM-score: 14)
    AAA_17; AAA domain (PF13207; HMM-score: 14)
    RNA_helicase; RNA helicase (PF00910; HMM-score: 13.8)
    Cytidylate_kin; Cytidylate kinase (PF02224; HMM-score: 13.8)
    AAA_33; AAA domain (PF13671; HMM-score: 13.5)
    PhoH; PhoH-like protein (PF02562; HMM-score: 13.2)
    ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 12.6)
    PduV-EutP; Ethanolamine utilisation - propanediol utilisation (PF10662; HMM-score: 12.6)
    C1 (CL0006) C1_2; C1 domain (PF03107; HMM-score: 11.7)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • 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): 0.063176
    • TAT(Tat/SPI): 0.001019
    • LIPO(Sec/SPII): 0.00183
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MFKFNEDEENLKCSFCGKDQDQVKKLVAGSGVYICNECIELCSEIVEEELAQNTSEAMTELPTPKEIMDHLNEYVIGQEKAKKSLAVAVYNHYKRIQQLGPKEDDVELQKSNIALIGPTGSGKTLLAQTLAKTLNVPFAIADATSLTEAGYVGDDVENILLRLIQAADFDIDKAEKGIIYVDEIDKIARKSENTSITRDVSGEGVQQALLKILEGTTASVPPQGGRKHPNQEMIQIDTTNILFILGGAFDGIEEVIKRRLGEKVIGFSSNEADKYDEQALLAQIRPEDLQAYGLIPEFIGRVPIVANLETLDVTALKNILTQPKNALVKQYTKMLELDDVDLEFTEEALSAISEKAIERKTGARGLRSIIEESLIDIMFDVPSNENVTKVVITAQTINEETEPELYDAEGNLINNSKTSA

⊟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_0167(fadA)acetyl-CoA acetyltransferase-like protein  [1] (data from MRSA252)
    NWMN_2438(poxB)pyruvate oxidase  [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)
    NWMN_0430hypothetical protein  [1] (data from MRSA252)
    NWMN_2206hypothetical protein  [1] (data from MRSA252)
    NWMN_2467O-acetyltransferase OatA  [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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 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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