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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1005 [new locus tag: SACOL_RS05135 ]
  • pan locus tag?: SAUPAN003171000
  • symbol: pepF
  • pan gene symbol?: pepF
  • synonym:
  • product: oligoendopeptidase F

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SACOL1005 [new locus tag: SACOL_RS05135 ]
  • symbol: pepF
  • product: oligoendopeptidase F
  • replicon: chromosome
  • strand: +
  • coordinates: 1013082..1014890
  • length: 1809
  • essential: unknown other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 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
    ATGAGTCAACAATTATCGAGAGAAGAACAGGAACGTAAATATCCTGAATATACATGGGAC
    TTAACAACAATTTTCAAAGATGATGAAGCTTTTGAGGCTGCATTTAAAGAAGTTGAAAAT
    GAGTTAGGCAAAGAAGAACAATTTAAAGGACACATTGGTGATAGTGCTGAGACATTATAC
    AATGCGTTAGAATTAGAAGATACATTAGGTACTAAATTAGAAAAAGTATATGTATACGCG
    CACCTAAAACAAGACCAAGATACAACGAACGACAAGTATACTGGTATGGAGTCAAGAGCA
    CATCAATTAATTATTAAATTTAGCTCGGCATGGAGTTTCTTAGTGCCAGAGATTTTACAA
    ATTGATGAAGATAAAATTCAATCATTTGTAAATTCATATGATAAATTACAAAAATTCGCA
    TTTGATTTGAAGTTGATTAATGAAAAACGTCCTCATATTTTAGATGCTGAAACTGAAAAG
    TTATTAACAGAAGCGCAGGACGCGTTATCAACGCCATCAAATGTATACGGTATGTTTAGC
    AACGCTGATTTAGTATTTGAAGATGCGATAGATAAAGATGGAAATGCACACCCGTTAACA
    CAAGGTACATTTATTAAGTATTTAGAAACAGATGATCGCAAACTAAGAGAAAGTGCTTTT
    AGAAATGTATATAAAGCATATGGTGCTCATAATAATACGCTTGGCGCTACGCTAGCAGGT
    GAAGTGAAGAAAAATGTATTTAATGCTCGTACACACAATTACAAAACTGCAAGAGAAAAA
    GCATTGAGTAATAATCATATTCCAGAAAATGTATATGACAATCTAGTAAAAACTGTACAT
    AAATATTTACCATTGCTACATAGATATACTGAATTGCGCAAAGAATTGCTAGGTTTAGAT
    GACTTGAAAATGTATGATTTATATACACCATTAATTAAAGATATTAAGTTTGAAATGCCT
    TATGAAGAAGCTAAAGAGTGGATGTTAAAAGCATTAGAACCAATGGGTGAAGAATATTTA
    AATGTAGTTAAAGAAGGCTTAAACAATCGTTGGGTCGATGTCTATGAGAATAAAGGTAAA
    CGTTCAGGTGGCTATTCATCAGGTGCACATTTAACTAATCCATTTATTCTACTTAACTGG
    TCTAATACTATTTCAGACTTATACACATTAGTTCATGAATTTGGGCATTCAGCACATAGT
    TACTTCAGTAGAAAATTCCAACCGTCAAATTCTAGTGACTACACTATTTTTGTCGCTGAA
    GTTGCATCAACTTGTAACGAAGCACTTTTAAGTGATTATATGGATAAACATCTTGATGAT
    GAAAAACGCTTATTATTATTAAACCAAGAATTAGAACGTTTCAGAGCTACATTATTCCGA
    CAAACAATGTTCGCAGAATTTGAGCATAAAATTCATGCAATTGAAGAAGCAGGTGAACCA
    TTAACGCCAACTAGAATGAATGAAGAATATGCCAAATTAAATAAATTATACTTCGGTGAT
    TCTGTAGAAACTGATGAAGATATTAGTAAGGAATGGTCACGTATTCCACACTTCTATATG
    AATTATTATGTATATCAATACGCAACTGGTTACAGTGCAGCTCAAAGCTTAAGTCATCAA
    ATTTTAACAGAAGGTAAGCCAGCAGTAGATAGATATATTAATGAATTCTTGAAAAAAGGT
    AGCTCAAATTATCCAATTGAGATATTAAAAAATGCTGGTGTAGATATGACAACACCTGAA
    CCAATTGAACAAGCTTGTGAAGTTTTTGAACAAAAATTGAACGCTTTTGAAAAATTAATG
    AAAGCTTAG
    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
    1809

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SACOL1005 [new locus tag: SACOL_RS05135 ]
  • symbol: PepF
  • description: oligoendopeptidase F
  • length: 602
  • theoretical pI: 4.92265
  • theoretical MW: 69818.9
  • GRAVY: -0.631063

Function[edit source | edit]

  • reaction:
    EC 3.4.24.-?  ExPASy
  • TIGRFAM:
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesoligoendopeptidase F (TIGR00181; EC 3.4.24.-; HMM-score: 669.1)
    oligoendopeptidase, pepF/M3 family (TIGR02290; EC 3.4.24.-; HMM-score: 330.2)
    oligoendopeptidase, M3 family (TIGR02289; EC 3.4.24.-; HMM-score: 99.6)
  • TheSEED:  
    Oligoendopeptidase F 
  • PFAM:
    Peptidase_MA (CL0126) Peptidase_M3; Peptidase family M3 (PF01432; HMM-score: 255)
    no clan definedPeptidase_M3_N; Oligopeptidase F (PF08439; HMM-score: 72.5)
    SH3 (CL0010) SH3_3; Bacterial SH3 domain (PF08239; HMM-score: 13)
    no clan definedDUF2264; Uncharacterized protein conserved in bacteria (DUF2264) (PF10022; HMM-score: 12.9)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • 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
    • Ymax: 0.115
    • Ymax_pos: 11
    • Cmax: 0.107
    • Cmax_pos: 34
    • Smax: 0.152
    • Smax_pos: 5
    • Smean: 0.133
    • D: 0.122
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MSQQLSREEQERKYPEYTWDLTTIFKDDEAFEAAFKEVENELGKEEQFKGHIGDSAETLYNALELEDTLGTKLEKVYVYAHLKQDQDTTNDKYTGMESRAHQLIIKFSSAWSFLVPEILQIDEDKIQSFVNSYDKLQKFAFDLKLINEKRPHILDAETEKLLTEAQDALSTPSNVYGMFSNADLVFEDAIDKDGNAHPLTQGTFIKYLETDDRKLRESAFRNVYKAYGAHNNTLGATLAGEVKKNVFNARTHNYKTAREKALSNNHIPENVYDNLVKTVHKYLPLLHRYTELRKELLGLDDLKMYDLYTPLIKDIKFEMPYEEAKEWMLKALEPMGEEYLNVVKEGLNNRWVDVYENKGKRSGGYSSGAHLTNPFILLNWSNTISDLYTLVHEFGHSAHSYFSRKFQPSNSSDYTIFVAEVASTCNEALLSDYMDKHLDDEKRLLLLNQELERFRATLFRQTMFAEFEHKIHAIEEAGEPLTPTRMNEEYAKLNKLYFGDSVETDEDISKEWSRIPHFYMNYYVYQYATGYSAAQSLSHQILTEGKPAVDRYINEFLKKGSSNYPIEILKNAGVDMTTPEPIEQACEVFEQKLNAFEKLMKA

Experimental data[edit source | edit]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [1] [2] [3]
    quantitative data / protein copy number per cell: 2091 [4]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

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

Protein stability[edit source | edit]

  • half-life: 27.93 h [5]

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS ONE: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  2. Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J. Proteome Res.: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)
  3. Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int. J. Med. Microbiol.: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)
  4. Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)
  5. Stephan Michalik, Jörg Bernhardt, Andreas Otto, Martin Moche, Dörte Becher, Hanna Meyer, Michael Lalk, Claudia Schurmann, Rabea Schlüter, Holger Kock, Ulf Gerth, Michael Hecker
    Life and death of proteins: a case study of glucose-starved Staphylococcus aureus.
    Mol. Cell Proteomics: 2012, 11(9);558-70
    [PubMed:22556279] [WorldCat.org] [DOI] (I p)

Relevant publications[edit source | edit]

Suzanne E Dale, Amanda Doherty-Kirby, Gilles Lajoie, David E Heinrichs
Role of siderophore biosynthesis in virulence of Staphylococcus aureus: identification and characterization of genes involved in production of a siderophore.
Infect. Immun.: 2004, 72(1);29-37
[PubMed:14688077] [WorldCat.org] (P p)