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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00477
  • pan locus tag?: SAUPAN002244000
  • symbol: SAOUHSC_00477
  • pan gene symbol?: mfd
  • synonym:
  • product: transcription-repair coupling factor

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_00477
  • symbol: SAOUHSC_00477
  • product: transcription-repair coupling factor
  • replicon: chromosome
  • strand: +
  • coordinates: 473725..477231
  • length: 3507
  • 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
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    2221
    2281
    2341
    2401
    2461
    2521
    2581
    2641
    2701
    2761
    2821
    2881
    2941
    3001
    3061
    3121
    3181
    3241
    3301
    3361
    3421
    3481
    ATGACAATATTGACAACGCTTATAAAAGAAGATAATCATTTTCAAGACCTTAATCAGGTA
    TTTGGACAAGCAAACACACTAGTAACTGGTCTTTCCCCGTCAGCTAAAGTGACGATGATT
    GCTGAAAAATATGCACAAAGTAATCAACAGTTATTATTAATTACCAATAATTTATACCAA
    GCAGATAAATTAGAAACAGATTTACTTCAATTTATAGATGCTGAAGAATTGTATAAGTAT
    CCTGTGCAAGATATTATGACCGAAGAGTTTTCAACACAAAGCCCTCAACTGATGAGTGAA
    CGTATTAGAACTTTAACTGCGTTAGCTCAAGGTAAGAAAGGGTTATTTATCGTTCCTTTA
    AATGGTTTGAAAAAGTGGTTAACTCCTGTTGAAATGTGGCAAAATCACCAAATGACATTG
    CGTGTTGGTGAGGATATCGATGTGGACCAATTTCTTAACAAATTAGTTAATATGGGGTAC
    AAACGGGAATCCGTGGTATCGCATATTGGTGAATTCTCATTGCGAGGAGGTATTATCGAT
    ATCTTTCCGCTAATTGGGGAACCAATCAGAATTGAGCTATTTGATACCGAAATTGATTCT
    ATTCGGGATTTTGATGTTGAAACGCAGCGTTCCAAAGATAATGTTGAAGAAGTCGATATC
    ACAACTGCAAGTGATTATATCATTACTGAAGAAGTGATCAGCCATCTTAAAGAAGAGTTA
    AAAACTGCATATGAAAATACAAGACCCAAAATAGATAAATCAGTGCGCAATGATTTGAAA
    GAAACGTATGAAAGCTTTAAATTATTCGAAAGTACATACTTTGATCATCAAATACTACGT
    CGCTTAGTAGCGTTTATGTATGAAACACCTTCGACAATTATTGAGTATTTCCAAAAAGAT
    GCAATCATTGCAGTTGATGAATTTAATCGTATTAAAGAAACTGAAGAAAGTTTAACAGTA
    GAGTCTGATTCGTTTATTAGCAATATTATTGAAAGTGGTAATGGATTTATAGGACAAAGT
    TTTATAAAATATGATGATTTTGAAACATTGATTGAAGGCTATCCTGTCACTTATTTTTCA
    TTATTCGCTACAACAATGCCGATAAAACTAAATCATATTATTAAATTTTCATGTAAACCT
    GTCCAACAATTTTATGGGCAATATGACATTATGCGTTCTGAATTTCAACGATATGTTAAT
    CAAAACTATCATATCGTGGTTTTGGTCGAAACCGAAACTAAAGTTGAACGTATGCAAGCG
    ATGTTAAGTGAAATGCATATTCCATCAATAACAAAATTGCATCGCTCAATGTCATCGGGG
    CAAGCAGTGATTATTGAAGGCAGTTTATCTGAAGGATTTGAACTACCTGATATGGGATTA
    GTTGTCATTACTGAGCGTGAGCTTTTTAAATCAAAACAGAAAAAGCAACGAAAACGTACG
    AAAGCTATCTCAAATGCTGAAAAAATTAAGTCTTACCAAGATTTAAATGTGGGAGATTAT
    ATTGTTCATGTGCATCATGGTGTTGGTAGATATTTAGGTGTTGAGACGCTCGAAGTGGGG
    CAAACGCATCGTGATTATATTAAATTGCAATATAAAGGTACGGATCAACTATTTGTTCCA
    GTAGATCAAATGGATCAAGTTCAAAAATATGTAGCTTCGGAAGATAAGACGCCAAAATTA
    AATAAACTCGGTGGCAGTGAATGGAAAAAAACAAAAGCTAAAGTTCAACAAAGTGTTGAA
    GATATTGCTGAAGAGTTGATTGATTTATATAAAGAAAGAGAAATGGCAGAAGGTTATCAA
    TATGGGGAAGACACAGCTGAGCAAACAACATTTGAATTAGATTTTCCATATGAACTTACG
    CCTGACCAAGCTAAATCTATCGATGAAATTAAAGATGACATGCAAAAATCGCGTCCAATG
    GATCGCTTGCTATGTGGTGATGTTGGTTATGGTAAAACTGAAGTTGCAGTGAGAGCAGCA
    TTCAAAGCTGTAATGGAAGGAAAGCAGGTTGCATTTTTAGTTCCTACAACTATTTTAGCT
    CAGCAACATTATGAGACGTTAATTGAGCGTATGCAAGATTTTCCTGTTGAAATTCAATTA
    ATGAGTCGTTTTAGAACGCCTAAAGAGATAAAACAAACTAAGGAAGGACTTAAAACTGGA
    TTTGTTGACATAGTTGTTGGTACACACAAATTACTTAGTAAAGATATACAGTATAAAGAT
    TTAGGGCTGTTGATTGTAGATGAAGAACAACGATTTGGTGTACGCCATAAAGAGCGTATT
    AAAACATTAAAACATAATGTAGATGTACTAACATTGACTGCAACCCCAATACCTAGAACA
    TTGCATATGAGTATGCTAGGTGTGCGGGATTTGTCAGTGATTGAAACGCCGCCAGAAAAT
    CGTTTCCCAGTTCAAACATATGTATTAGAACAGAACATGAGTTTTATCAAAGAAGCTTTA
    GAAAGAGAACTATCCCGTGATGGCCAAGTGTTTTATCTTTATAATAAAGTGCAATCCATT
    TATGAAAAACGAGAACAACTCCAGATGTTAATGCCAGATGCTAACATTGCAGTTGCTCAT
    GGACAAATGACAGAGCGCGATTTAGAAGAAACGATGTTAAGTTTTATCAATAATGAATAT
    GATATTTTAGTAACGACGACGATTATTGAAACAGGTGTCGATGTCCCAAATGCAAATACT
    TTGATCATTGAAGATGCAGATCGCTTTGGATTGAGTCAGTTGTATCAATTAAGAGGTCGT
    GTTGGTCGTTCAAGTCGTATTGGTTATGCATACTTCTTACATCCAGCAAATAAGGTACTA
    ACTGAGACTGCAGAAGATCGATTACAAGCGATTAAAGAATTTACGGAGTTAGGCTCAGGA
    TTTAAGATTGCGATGCGTGATTTGAACATTCGTGGTGCTGGTAATTTGTTAGGTAAACAA
    CAGCACGGCTTTATTGATACAGTTGGATTTGATTTGTACAGTCAAATGTTAGAAGAAGCT
    GTAAATGAAAAACGTGGTATTAAGGAACCAGAATCTGAGGTGCCAGAAGTCGAAGTTGAT
    TTAAACTTGGATGCATATTTGCCAACAGAATATATTGCAAATGAACAAGCTAAAATTGAA
    ATTTATAAAAAGCTACGAAAAACTGAAACATTTGATCAAATTATCGACATTAAAGATGAA
    TTAATTGATCGTTTCAATGATTATCCTGTTGAAGTAGCACGTTTGCTTGATATAGTGGAA
    ATAAAAGTACACGCATTACATTCAGGTATCACGTTGATTAAAGATAAAGGGAAAATAATT
    GATATTCATTTATCTGTAAAAGCCACTGAAAATATTGATGGCGAAGTGCTGTTCAAAGCA
    ACACAACCTTTAGGTAGAACAATGAAGGTTGGTGTTCAAAATAATGCAATGACAATTACT
    TTAACGAAACAAAATCAATGGCTTGATAGTTTGAAGTTTTTAGTTAAGTGCATTGAAGAA
    AGTATGAGAATCAGTGATGAAGCATAA
    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
    2160
    2220
    2280
    2340
    2400
    2460
    2520
    2580
    2640
    2700
    2760
    2820
    2880
    2940
    3000
    3060
    3120
    3180
    3240
    3300
    3360
    3420
    3480
    3507

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_00477
  • symbol: SAOUHSC_00477
  • description: transcription-repair coupling factor
  • length: 1168
  • theoretical pI: 4.86428
  • theoretical MW: 134218
  • GRAVY: -0.365668

⊟Function[edit | edit source]

  • reaction:
    EC 3.6.4.-?  ExPASy
  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair transcription-repair coupling factor (TIGR00580; EC 3.6.1.-; HMM-score: 1127.5)
    and 4 more
    Genetic information processing DNA metabolism DNA replication, recombination, and repair ATP-dependent DNA helicase RecG (TIGR00643; EC 3.6.4.12; HMM-score: 388.6)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair excinuclease ABC subunit B (TIGR00631; EC 3.1.25.-; HMM-score: 91.1)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair primosomal protein N' (TIGR00595; EC 3.6.1.-; HMM-score: 58.2)
    CRISPR-associated helicase Cas3 (TIGR01587; HMM-score: 46.3)
  • TheSEED  :
    • Transcription-repair coupling factor
    DNA Metabolism DNA replication DNA-replication  Transcription-repair coupling factor
    and 1 more
    RNA Metabolism Transcription Transcription factors bacterial  Transcription-repair coupling factor
  • PFAM:
    no clan defined CarD_CdnL_TRCF; CarD-like/TRCF domain (PF02559; HMM-score: 110.3)
    and 8 more
    TRCF; TRCF domain (PF03461; HMM-score: 82.8)
    P-loop_NTPase (CL0023) DEAD; DEAD/DEAH box helicase (PF00270; HMM-score: 67.5)
    Helicase_C; Helicase conserved C-terminal domain (PF00271; HMM-score: 63.5)
    ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 32.9)
    no clan defined Glyco_hydro_115; Glycosyl hydrolase family 115 (PF15979; HMM-score: 16.6)
    UB2H; Bifunctional transglycosylase second domain (PF14814; HMM-score: 16.3)
    P-loop_NTPase (CL0023) IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 14.5)
    AAA_22; AAA domain (PF13401; HMM-score: 13.2)

⊟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): 0.006634
    • TAT(Tat/SPI): 0.001734
    • LIPO(Sec/SPII): 0.000867
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTILTTLIKEDNHFQDLNQVFGQANTLVTGLSPSAKVTMIAEKYAQSNQQLLLITNNLYQADKLETDLLQFIDAEELYKYPVQDIMTEEFSTQSPQLMSERIRTLTALAQGKKGLFIVPLNGLKKWLTPVEMWQNHQMTLRVGEDIDVDQFLNKLVNMGYKRESVVSHIGEFSLRGGIIDIFPLIGEPIRIELFDTEIDSIRDFDVETQRSKDNVEEVDITTASDYIITEEVISHLKEELKTAYENTRPKIDKSVRNDLKETYESFKLFESTYFDHQILRRLVAFMYETPSTIIEYFQKDAIIAVDEFNRIKETEESLTVESDSFISNIIESGNGFIGQSFIKYDDFETLIEGYPVTYFSLFATTMPIKLNHIIKFSCKPVQQFYGQYDIMRSEFQRYVNQNYHIVVLVETETKVERMQAMLSEMHIPSITKLHRSMSSGQAVIIEGSLSEGFELPDMGLVVITERELFKSKQKKQRKRTKAISNAEKIKSYQDLNVGDYIVHVHHGVGRYLGVETLEVGQTHRDYIKLQYKGTDQLFVPVDQMDQVQKYVASEDKTPKLNKLGGSEWKKTKAKVQQSVEDIAEELIDLYKEREMAEGYQYGEDTAEQTTFELDFPYELTPDQAKSIDEIKDDMQKSRPMDRLLCGDVGYGKTEVAVRAAFKAVMEGKQVAFLVPTTILAQQHYETLIERMQDFPVEIQLMSRFRTPKEIKQTKEGLKTGFVDIVVGTHKLLSKDIQYKDLGLLIVDEEQRFGVRHKERIKTLKHNVDVLTLTATPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVLEQNMSFIKEALERELSRDGQVFYLYNKVQSIYEKREQLQMLMPDANIAVAHGQMTERDLEETMLSFINNEYDILVTTTIIETGVDVPNANTLIIEDADRFGLSQLYQLRGRVGRSSRIGYAYFLHPANKVLTETAEDRLQAIKEFTELGSGFKIAMRDLNIRGAGNLLGKQQHGFIDTVGFDLYSQMLEEAVNEKRGIKEPESEVPEVEVDLNLDAYLPTEYIANEQAKIEIYKKLRKTETFDQIIDIKDELIDRFNDYPVEVARLLDIVEIKVHALHSGITLIKDKGKIIDIHLSVKATENIDGEVLFKATQPLGRTMKVGVQNNAMTITLTKQNQWLDSLKFLVKCIEESMRISDEA

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [1] [2]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • 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]

  1. ↑ Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  3. ↑ 3.0 3.1 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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