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m (Text replacement - "gene Genbank" to "gene RefSeq")
m (Text replacement - "* <aureodatabase>protein Genbank</aureodatabase> " to "")
 
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__TOC__
<protect>
<protect>
<aureodatabase>NCBI date</aureodatabase>
<aureodatabase>annotation</aureodatabase>


=Summary=
=Summary=


* <aureodatabase>organism</aureodatabase>
*<aureodatabase>organism</aureodatabase>
* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>pan locus</aureodatabase>
*<aureodatabase>pan locus</aureodatabase>
* <aureodatabase>gene symbol</aureodatabase>
*<aureodatabase>gene symbol</aureodatabase>
* <aureodatabase>pan gene symbol</aureodatabase>
*<aureodatabase>pan gene symbol</aureodatabase>
* <aureodatabase>gene synonyms</aureodatabase>
*<aureodatabase>gene synonyms</aureodatabase>
* <aureodatabase>product</aureodatabase>
*<aureodatabase>product</aureodatabase>
</protect>
</protect>


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==General==
==General==


* <aureodatabase>gene type</aureodatabase>
*<aureodatabase>gene type</aureodatabase>
* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>gene symbol</aureodatabase>
*<aureodatabase>gene symbol</aureodatabase>
* <aureodatabase>product</aureodatabase>
*<aureodatabase>product</aureodatabase>
* <aureodatabase>gene replicon</aureodatabase>
*<aureodatabase>gene replicon</aureodatabase>
* <aureodatabase>strand</aureodatabase>
*<aureodatabase>strand</aureodatabase>
* <aureodatabase>gene coordinates</aureodatabase>
*<aureodatabase>gene coordinates</aureodatabase>
* <aureodatabase>gene length</aureodatabase>
*<aureodatabase>gene length</aureodatabase>
* <aureodatabase>essential</aureodatabase>
*<aureodatabase>essential</aureodatabase>
*<aureodatabase>gene comment</aureodatabase>
</protect>
</protect>


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==Accession numbers==
==Accession numbers==


* <aureodatabase>gene GI</aureodatabase>
*<aureodatabase>gene location</aureodatabase>
* <aureodatabase>gene RefSeq</aureodatabase>
*<aureodatabase>gene BioCyc</aureodatabase>
*<aureodatabase>gene MicrobesOnline</aureodatabase>
</protect>
</protect>
   
   
<protect>  
<protect>
==Phenotype==
==Phenotype==
</protect>
</protect>
* Share your knowledge and add information here. [<span class="plainlinks">[http://www.protecs.uni-greifswald.de/aureowiki/index.php?title={{PAGENAMEE}}&action=edit&section=6 edit]</span>]
Share your knowledge and add information here. [<span class="plainlinks">[//aureowiki.med.uni-greifswald.de/index.php?title={{PAGENAMEE}}&veaction=edit&section=6 edit]</span>]


<protect>
<protect>
==DNA sequence==
==DNA sequence==


* <aureodatabase>gene sequence</aureodatabase>
*<aureodatabase>gene sequence</aureodatabase>
</protect>
</protect>


<protect>
<protect>
<aureodatabase>RNA regulated operons</aureodatabase>
</protect>


<protect>
=Protein=
=Protein=
<aureodatabase>protein 3D view</aureodatabase>
<aureodatabase>protein 3D view</aureodatabase>
==General==
==General==


* <aureodatabase>locus</aureodatabase>
*<aureodatabase>locus</aureodatabase>
* <aureodatabase>protein symbol</aureodatabase>
*<aureodatabase>protein symbol</aureodatabase>
* <aureodatabase>protein description</aureodatabase>
*<aureodatabase>protein description</aureodatabase>
* <aureodatabase>protein length</aureodatabase>
*<aureodatabase>protein length</aureodatabase>
* <aureodatabase>theoretical pI</aureodatabase>
*<aureodatabase>theoretical pI</aureodatabase>
* <aureodatabase>theoretical MW</aureodatabase>
*<aureodatabase>theoretical MW</aureodatabase>
* <aureodatabase>GRAVY</aureodatabase>
*<aureodatabase>GRAVY</aureodatabase>
</protect>
</protect>


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==Function==
==Function==


* <aureodatabase>protein reaction</aureodatabase>
*<aureodatabase>protein reaction</aureodatabase>
* <aureodatabase>protein TIGRFAM</aureodatabase>
*<aureodatabase>protein TIGRFAM</aureodatabase>
* <aureodatabase>protein TheSeed</aureodatabase>
*<aureodatabase>protein TheSeed</aureodatabase>
* <aureodatabase>protein PFAM</aureodatabase>
*<aureodatabase>protein PFAM</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Structure, modifications & interactions==
==Structure, modifications & cofactors==


* <aureodatabase>protein domains</aureodatabase>
*<aureodatabase>protein domains</aureodatabase>
* <aureodatabase>protein modifications</aureodatabase>
*<aureodatabase>protein modifications</aureodatabase>
* <aureodatabase>protein cofactors</aureodatabase>
*<aureodatabase>protein cofactors</aureodatabase>
* <aureodatabase>protein effectors</aureodatabase>
*<aureodatabase>protein effectors</aureodatabase>
* <aureodatabase>protein partners</aureodatabase>
*<aureodatabase>protein regulated operons</aureodatabase>
</protect>
</protect>


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==Localization==
==Localization==


* <aureodatabase>protein Psortb</aureodatabase>
*<aureodatabase>protein Psortb</aureodatabase>
* <aureodatabase>protein LocateP</aureodatabase>
*<aureodatabase>protein LocateP</aureodatabase>
* <aureodatabase>protein SignalP</aureodatabase>
*<aureodatabase>protein SignalP</aureodatabase>
* <aureodatabase>protein TMHMM</aureodatabase>
*<aureodatabase>protein TMHMM</aureodatabase>
</protect>
</protect>


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==Accession numbers==
==Accession numbers==


* <aureodatabase>protein GI</aureodatabase>
*<aureodatabase>protein GI</aureodatabase>
* <aureodatabase>protein UniProt</aureodatabase>
*<aureodatabase>protein RefSeq</aureodatabase>
* <aureodatabase>protein Genbank</aureodatabase>
*<aureodatabase>protein UniProt</aureodatabase>
* <aureodatabase>protein RefSeq</aureodatabase>
</protect>
</protect>


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==Protein sequence==
==Protein sequence==


* <aureodatabase>protein sequence</aureodatabase>
*<aureodatabase>protein sequence</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Peptides==
==Experimental data==


* <aureodatabase>protein validated peptides</aureodatabase>
*<aureodatabase>protein validated peptides</aureodatabase>
*<aureodatabase>protein validated localization</aureodatabase>
*<aureodatabase>protein validated quantitative data</aureodatabase>
*<aureodatabase>protein partners</aureodatabase>
</protect>
</protect>


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==Operon==
==Operon==


* <aureodatabase>operons</aureodatabase>
*<aureodatabase>operons</aureodatabase>
</protect>
</protect>


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==Regulation==
==Regulation==


* <aureodatabase>sigma factors</aureodatabase>
*<aureodatabase>regulators</aureodatabase>
* <aureodatabase>regulators</aureodatabase>
</protect>
</protect>


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==Transcription pattern==
==Transcription pattern==


* <aureodatabase>expression browser</aureodatabase>
*<aureodatabase>expression browser</aureodatabase>
</protect>
</protect>


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==Protein synthesis (provided by Aureolib)==
==Protein synthesis (provided by Aureolib)==


* <aureodatabase>protein synthesis Aureolib</aureodatabase>
*<aureodatabase>protein synthesis Aureolib</aureodatabase>
</protect>
</protect>


<protect>
<protect>
==Stability==
==Protein stability==


* <aureodatabase>protein half-life</aureodatabase>
*<aureodatabase>protein half-life</aureodatabase>
</protect>
</protect>


Latest revision as of 01:45, 11 March 2016

NCBI: 02-MAR-2017

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_RS04885 [old locus tag: NWMN_0870 ]
  • pan locus tag?: SAUPAN003171000
  • symbol: NWMN_RS04885
  • pan gene symbol?: pepF
  • synonym:
  • product: oligoendopeptidase F

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_RS04885 [old locus tag: NWMN_0870 ]
  • symbol: NWMN_RS04885
  • product: oligoendopeptidase F
  • replicon: chromosome
  • strand: +
  • coordinates: 966256..968064
  • length: 1809
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Location: NC_009641 (966256..968064) NCBI
  • BioCyc:
  • MicrobesOnline: see NWMN_0870

⊟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
    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 | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_RS04885 [old locus tag: NWMN_0870 ]
  • symbol: NWMN_RS04885
  • description: oligoendopeptidase F
  • length: 602
  • theoretical pI: 4.92265
  • theoretical MW: 69818.9
  • GRAVY: -0.631063

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides oligoendopeptidase F (TIGR00181; EC 3.4.24.-; HMM-score: 669.1)
    and 2 more
    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: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    Peptidase_MA (CL0126) Peptidase_M3; Peptidase family M3 (PF01432; HMM-score: 255)
    and 3 more
    no clan defined Peptidase_M3_N; Oligopeptidase F (PF08439; HMM-score: 72.5)
    SH3 (CL0010) SH3_3; Bacterial SH3 domain (PF08239; HMM-score: 13)
    no clan defined DUF2264; Uncharacterized protein conserved in bacteria (DUF2264) (PF10022; HMM-score: 12.9)

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

  • domains:
  • modifications:
  • cofactors: Zn2+
  • 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:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.002398
    • TAT(Tat/SPI): 0.00041
    • LIPO(Sec/SPII): 0.000373
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSQQLSREEQERKYPEYTWDLTTIFKDDEAFEAAFKEVENELGKEEQFKGHIGDSAETLYNALELEDTLGTKLEKVYVYAHLKQDQDTTNDKYTGMESRAHQLIIKFSSAWSFLVPEILQIDEDKIQSFVNSYDKLQKFAFDLKLINEKRPHILDAETEKLLTEAQDALSTPSNVYGMFSNADLVFEDAIDKDGNAHPLTQGTFIKYLETDDRKLRESAFRNVYKAYGAHNNTLGATLAGEVKKNVFNARTHNYKTAREKALSNNHIPENVYDNLVKTVHKYLPLLHRYTELRKELLGLDDLKMYDLYTPLIKDIKFEMPYEEAKEWMLKALEPMGEEYLNVVKEGLNNRWVDVYENKGKRSGGYSSGAHLTNPFILLNWSNTISDLYTLVHEFGHSAHSYFSRKFQPSNSSDYTIFVAEVASTCNEALLSDYMDKHLDDEKRLLLLNQELERFRATLFRQTMFAEFEHKIHAIEEAGEPLTPTRMNEEYAKLNKLYFGDSVETDEDISKEWSRIPHFYMNYYVYQYATGYSAAQSLSHQILTEGKPAVDRYINEFLKKGSSNYPIEILKNAGVDMTTPEPIEQACEVFEQKLNAFEKLMKA

⊟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:

⊟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]

⊟Relevant publications[edit | edit source]

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