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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_2448 [new locus tag: NWMN_RS14070 ]
  • pan locus tag?: SAUPAN006210000
  • symbol: clpC
  • pan gene symbol?: clpL
  • synonym:
  • product: ATP-dependent Clp protease, ATP-binding subunit ClpC

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_2448 [new locus tag: NWMN_RS14070 ]
  • symbol: clpC
  • product: ATP-dependent Clp protease, ATP-binding subunit ClpC
  • replicon: chromosome
  • strand: +
  • coordinates: 2691237..2693342
  • length: 2106
  • 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
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    ATGAATAACGTTTTTTTCAATAGCGACTTTGATTCAATTTTTCGAAGAATGATGAAAGAT
    ATGCAAGGTTCAAATCAAGTCGGAAACAAAAAGTACTATATTAATGGTAAAGAAGTTTCA
    CCTGAAGAACTAGCGCAACTCACACAACAAGGTGGCAATCACTCTGCTGAACAAAGTGCG
    CAAGCTTTTCAACAAGCAGCACAAAGACAACAAGGGCAACAAGGTGGCAACGGCAATTAT
    TTAGAACAAATTGGTCGTAACCTTACGCAAGAAGCACGTGACGGTTTATTAGATCCAGTC
    ATTGGTCGTGATAAAGAAATTCAAGAAACTGCTGAAGTTTTAAGTAGACGAACTAAAAAC
    AATCCTATATTAGTTGGAGAAGCTGGTGTTGGTAAAACTGCGATTGTTGAAGGTTTAGCA
    CAGGCAATCGTTGAAGGAAATGTACCAGCAGCAATCAAAGACAAAGAAATTATTTCTGTA
    GACATTTCATCATTAGAAGCTGGAACGCAATATCGTGGTGCTTTTGAAGAAAATATTCAA
    AAATTAATCGAAGGTGTTAAATCTTCACAAAATGCCGTACTATTCTTTGATGAAATCCAT
    CAAATTATCGGTTCAGGTGCCACAGGAAGTGATTCAGGTAGCAAAGGGTTATCTGATATT
    TTGAAACCTGCATTAAGTCGTGGTGAGATTTCTATTATTGGTGCAACAACACAAGATGAA
    TATCGAAACAATATTCTTAAAGATGCTGCATTAACGCGCAGATTTAATGAAGTGCTTGTT
    AATGAACCAAGCGCTAAAGATACTGTTGAAATTTTAAAAGGTATTCGCGAAAAATTCGAA
    GAACACCATCAAGTAAAATTACCAGATGACGTATTAAAAGCATGTGTTGACTTATCAATT
    CAATATATTCCACAACGATTATTACCAGATAAAGCAATCGATGTGTTAGATATTACAGCA
    GCACATTTATCTGCGCAAAGTCCAGCTGTCGATAAAGTTGAAACTGAAAAACGAATTTCT
    GAATTAGAAAATGATAAACGTAAAGCAGTAAGTGCTGAAGAATATAAAAAAGCTGACGAC
    ATTCAAAATGAAATCAAATCATTACAAGATAAATTAGAAAATAGTAATGGTGAACATACT
    GCTGTTGCTACAGTTCATGATATTTCAGATACTATTCAACGATTAACTGGTATTCCAGTT
    TCTCAAATGGATGATAACGATATTGAACGTTTAAAAAATATTTCTAATCGTTTAAGAAGT
    AAAATCATAGGTCAAGATCAAGCTGTAGAAATGGTTTCACGTGCAATTCGCCGTAATCGT
    GCTGGGTTTGATGACGGCAACCGTCCAATTGGCAGTTTCCTATTTGTTGGCCCTACTGGT
    GTTGGTAAAACAGAGCTTGCTAAACAATTAGCAATTGATTTATTTGGTAATAAAGATGCA
    CTGATTCGACTTGATATGAGTGAATATAGTGACACAACAGCTGTTTCAAAAATGATTGGT
    ACAACTGCTGGTTATGTTGGTTATGATGACAATTCAAATACGTTAACTGAAAAAGTACGC
    CGTAATCCATACTCAGTCATTCTATTTGATGAAATCGAAAAAGCAAATCCACAAATTTTA
    ACATTGTTATTACAAGTAATGGATGATGGTAATTTGACTGATGGTCAAGGTAATGTCATC
    AACTTTAAAAATACAATTATTATTTGTACATCAAATGCTGGCTTTGGCAATGGCAATGAC
    GCTGAAGAAAAAGATATTATGCACGAAATGAAAAAATTCTTCCGCCCTGAATTCCTTAAC
    CGCTTCAACGGCATCGTTGAATTCTTACATTTAGATAAAGATGCATTGCAAGATATCGTC
    AACTTATTATTAGACGATGTACAAGTTACATTAGACAAAAAAGGTATTACGATGGACGTT
    TCTCAAGATGCGAAAGATTGGTTAATTGAAGAAGGCTATGATGAAGAATTAGGTGCACGT
    CCATTAAGACGTATTGTTGAACAGCAAGTACGTGACAAAATTACAGATTACTATTTAGAT
    CATACAGACGTTAAACATGTGGATATAGATGTTGAGGATAACGAATTAGTCGTAAAAGGT
    AAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2106

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_2448 [new locus tag: NWMN_RS14070 ]
  • symbol: ClpC
  • description: ATP-dependent Clp protease, ATP-binding subunit ClpC
  • length: 701
  • theoretical pI: 4.62942
  • theoretical MW: 77877.8
  • GRAVY: -0.499715

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent chaperone protein ClpB (TIGR03346; HMM-score: 698.3)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent Clp protease ATP-binding subunit ClpA (TIGR02639; HMM-score: 668.9)
    Cellular processes Cellular processes Pathogenesis type VI secretion ATPase, ClpV1 family (TIGR03345; HMM-score: 603.4)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VI secretion ATPase, ClpV1 family (TIGR03345; HMM-score: 603.4)
    and 17 more
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent Clp protease, ATP-binding subunit ClpX (TIGR00382; HMM-score: 52.2)
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent Clp protease, ATP-binding subunit ClpX (TIGR00382; HMM-score: 52.2)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking type VII secretion AAA-ATPase EccA (TIGR03922; HMM-score: 36)
    Cellular processes Cellular processes Chemotaxis and motility flagellar biosynthesis protein FlhF (TIGR03499; HMM-score: 34)
    Genetic information processing Protein fate Protein folding and stabilization ATP-dependent protease HslVU, ATPase subunit (TIGR00390; HMM-score: 29.3)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair orc1/cdc6 family replication initiation protein (TIGR02928; HMM-score: 28.4)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, subunit gamma and tau (TIGR02397; EC 2.7.7.7; HMM-score: 27.4)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides putative ATP-dependent protease (TIGR00764; HMM-score: 25.5)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair Holliday junction DNA helicase RuvB (TIGR00635; EC 3.6.4.12; HMM-score: 22.1)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DnaA regulatory inactivator Hda (TIGR03420; HMM-score: 20.7)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, delta' subunit (TIGR00678; EC 2.7.7.7; HMM-score: 18.5)
    Cellular processes Cellular processes Other gas vesicle protein GvpN (TIGR02640; HMM-score: 16.8)
    Signal transduction Regulatory functions DNA interactions psp operon transcriptional activator (TIGR02974; HMM-score: 15.8)
    Signal transduction Regulatory functions DNA interactions PEP-CTERM-box response regulator transcription factor (TIGR02915; HMM-score: 14.9)
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA 2-selenouridine synthase (TIGR03167; EC 2.9.1.-; HMM-score: 14.1)
    Genetic information processing Mobile and extrachromosomal element functions Other conjugative coupling factor TraD, SXT/TOL subfamily (TIGR03743; HMM-score: 12.3)
    Cellular processes Cellular processes Toxin production and resistance TOMM system kinase/cyclase fusion protein (TIGR03903; HMM-score: 12)
  • TheSEED  :
    • ATP-dependent protease ATP-binding subunit clpL
  • PFAM:
    P-loop_NTPase (CL0023) AAA_2; AAA domain (Cdc48 subfamily) (PF07724; HMM-score: 204.4)
    and 55 more
    AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 92.1)
    AAA_lid (CL0671) AAA_lid_9; AAA lid domain (PF17871; HMM-score: 90.6)
    ClpB_D2-small; C-terminal, D2-small domain, of ClpB protein (PF10431; HMM-score: 77)
    P-loop_NTPase (CL0023) AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 50.2)
    Sigma54_activat; Sigma-54 interaction domain (PF00158; HMM-score: 49.3)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 46.4)
    AAA_22; AAA domain (PF13401; HMM-score: 41.5)
    AAA_14; AAA domain (PF13173; HMM-score: 40.2)
    TniB; Bacterial TniB protein (PF05621; HMM-score: 32.1)
    nSTAND3; Novel STAND NTPase 3 (PF20720; HMM-score: 30.7)
    AAA_7; P-loop containing dynein motor region (PF12775; HMM-score: 29.7)
    DUF815; Protein of unknown function (DUF815) (PF05673; HMM-score: 27.5)
    NACHT; NACHT domain (PF05729; HMM-score: 26)
    ATPase_2; ATPase domain predominantly from Archaea (PF01637; HMM-score: 25.8)
    AAA_lid (CL0671) UVR; UvrB/uvrC motif (PF02151; HMM-score: 25.6)
    P-loop_NTPase (CL0023) RNA_helicase; RNA helicase (PF00910; HMM-score: 24.2)
    AAA_24; AAA domain (PF13479; HMM-score: 23.9)
    ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 23.6)
    RuvB_N; Holliday junction DNA helicase RuvB P-loop domain (PF05496; HMM-score: 22.5)
    TsaE; Threonylcarbamoyl adenosine biosynthesis protein TsaE (PF02367; HMM-score: 22.3)
    IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 22.2)
    RsgA_GTPase; RsgA GTPase (PF03193; HMM-score: 21.8)
    Mg_chelatase; Magnesium chelatase, subunit ChlI (PF01078; HMM-score: 21.2)
    AAA_3; ATPase family associated with various cellular activities (AAA) (PF07726; HMM-score: 20.9)
    Roc; Ras of Complex, Roc, domain of DAPkinase (PF08477; HMM-score: 20.9)
    bpMoxR; MoxR domain in the MoxR-vWA-beta-propeller ternary systems (PF20030; HMM-score: 19.1)
    AAA_19; AAA domain (PF13245; HMM-score: 17.8)
    AAA_25; AAA domain (PF13481; HMM-score: 17.1)
    NB-ARC; NB-ARC domain (PF00931; HMM-score: 16.9)
    TIP49; TIP49 P-loop domain (PF06068; HMM-score: 16.9)
    AAA_23; AAA domain (PF13476; HMM-score: 16.9)
    AAA_30; AAA domain (PF13604; HMM-score: 16.9)
    SRP54; SRP54-type protein, GTPase domain (PF00448; HMM-score: 16.6)
    AAA_18; AAA domain (PF13238; HMM-score: 16.2)
    ABC_tran; ABC transporter (PF00005; HMM-score: 16)
    PhoH; PhoH-like protein (PF02562; HMM-score: 15.9)
    AAA_33; AAA domain (PF13671; HMM-score: 15.9)
    VapE-like_dom; Virulence-associated protein E-like domain (PF05272; HMM-score: 15.8)
    Zeta_toxin; Zeta toxin (PF06414; HMM-score: 15.6)
    AAA_29; P-loop containing region of AAA domain (PF13555; HMM-score: 15.6)
    Ras; Ras family (PF00071; HMM-score: 15.5)
    no clan defined EcoR124_C; Type I restriction and modification enzyme - subunit R C terminal (PF12008; HMM-score: 14.2)
    P-loop_NTPase (CL0023) NBD_SMAX1; SMAX1 nucleotide binding domain (PF23569; HMM-score: 14.2)
    AAA_28; AAA domain (PF13521; HMM-score: 14)
    NTPase_1; NTPase (PF03266; HMM-score: 13.7)
    Torsin; Torsin (PF06309; HMM-score: 13.2)
    no clan defined Unstab_antitox; Putative addiction module component (PF09720; HMM-score: 13)
    P-loop_NTPase (CL0023) PduV-EutP; Ethanolamine utilisation - propanediol utilisation (PF10662; HMM-score: 12.9)
    CbiA; CobQ/CobB/MinD/ParA nucleotide binding domain (PF01656; HMM-score: 12.7)
    DEAD; DEAD/DEAH box helicase (PF00270; HMM-score: 12.6)
    no clan defined DUF7809; Domain of unknown function (DUF7809) (PF25100; HMM-score: 12.5)
    P-loop_NTPase (CL0023) SRPRB; Signal recognition particle receptor beta subunit (PF09439; HMM-score: 12.4)
    no clan defined LIM_bind; LIM-domain binding protein (PF01803; HMM-score: 11.1)
    CCDC-167; Coiled-coil domain-containing protein 167 (PF15188; HMM-score: 9.2)
    PUMA_CC; PUMA coiled-coil (PF24627; HMM-score: 8.9)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.89
    • Cytoplasmic Membrane Score: 0.09
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9535
    • Cytoplasmic Membrane Score: 0.0154
    • Cell wall & surface Score: 0.0034
    • Extracellular Score: 0.0278
  • 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): 0.041568
    • TAT(Tat/SPI): 0.001764
    • LIPO(Sec/SPII): 0.00307
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MNNVFFNSDFDSIFRRMMKDMQGSNQVGNKKYYINGKEVSPEELAQLTQQGGNHSAEQSAQAFQQAAQRQQGQQGGNGNYLEQIGRNLTQEARDGLLDPVIGRDKEIQETAEVLSRRTKNNPILVGEAGVGKTAIVEGLAQAIVEGNVPAAIKDKEIISVDISSLEAGTQYRGAFEENIQKLIEGVKSSQNAVLFFDEIHQIIGSGATGSDSGSKGLSDILKPALSRGEISIIGATTQDEYRNNILKDAALTRRFNEVLVNEPSAKDTVEILKGIREKFEEHHQVKLPDDVLKACVDLSIQYIPQRLLPDKAIDVLDITAAHLSAQSPAVDKVETEKRISELENDKRKAVSAEEYKKADDIQNEIKSLQDKLENSNGEHTAVATVHDISDTIQRLTGIPVSQMDDNDIERLKNISNRLRSKIIGQDQAVEMVSRAIRRNRAGFDDGNRPIGSFLFVGPTGVGKTELAKQLAIDLFGNKDALIRLDMSEYSDTTAVSKMIGTTAGYVGYDDNSNTLTEKVRRNPYSVILFDEIEKANPQILTLLLQVMDDGNLTDGQGNVINFKNTIIICTSNAGFGNGNDAEEKDIMHEMKKFFRPEFLNRFNGIVEFLHLDKDALQDIVNLLLDDVQVTLDKKGITMDVSQDAKDWLIEEGYDEELGARPLRRIVEQQVRDKITDYYLDHTDVKHVDIDVEDNELVVKGK

⊟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_1580(gapB)glyceraldehyde 3-phosphate dehydrogenase 2  [1] (data from MRSA252)
    NWMN_1217(glnA)glutamine synthetase  [1] (data from MRSA252)
    NWMN_2040(pdp)pyrimidine-nucleoside phosphorylase  [1] (data from MRSA252)
    NWMN_1592(pykA)pyruvate kinase  [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_0811hypothetical protein  [1] (data from MRSA252)
    NWMN_1604universal stress protein family protein  [1] (data from MRSA252)
    NWMN_1643D-alanine aminotransferase  [1] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: SigB (activation) regulon
    SigB(sigma factor)controlling a large regulon involved in stress/starvation response and adaptation;  [2] [3]   other strains

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 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)
  2. ↑ Markus Bischoff, Paul Dunman, Jan Kormanec, Daphne Macapagal, Ellen Murphy, William Mounts, Brigitte Berger-Bächi, Steven Projan
    Microarray-based analysis of the Staphylococcus aureus sigmaB regulon.
    J Bacteriol: 2004, 186(13);4085-99
    [PubMed:15205410] [WorldCat.org] [DOI] (P p)
  3. ↑ Bettina Schulthess, Dominik A Bloes, Patrice François, Myriam Girard, Jacques Schrenzel, Markus Bischoff, Brigitte Berger-Bächi
    The σB-dependent yabJ-spoVG operon is involved in the regulation of extracellular nuclease, lipase, and protease expression in Staphylococcus aureus.
    J Bacteriol: 2011, 193(18);4954-62
    [PubMed:21725011] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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