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PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 03-AUG-2016

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⊟Summary[edit | edit source]

Contents

  • 1 Summary
  • 2 Genome View
  • 3 Gene
    • 3.1 General
    • 3.2 Accession numbers
    • 3.3 Phenotype
    • 3.4 DNA sequence
  • 4 Protein
    • 4.1 General
    • 4.2 Function
    • 4.3 Structure, modifications & cofactors
    • 4.4 Localization
    • 4.5 Accession numbers
    • 4.6 Protein sequence
    • 4.7 Experimental data
  • 5 Expression & Regulation
    • 5.1 Operon
    • 5.2 Regulation
    • 5.3 Transcription pattern
    • 5.4 Protein synthesis (provided by Aureolib)
    • 5.5 Protein stability
  • 6 Biological Material
    • 6.1 Mutants
    • 6.2 Expression vector
    • 6.3 lacZ fusion
    • 6.4 GFP fusion
    • 6.5 two-hybrid system
    • 6.6 FLAG-tag construct
    • 6.7 Antibody
  • 7 Other Information
  • 8 Literature
    • 8.1 References
    • 8.2 Relevant publications
  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01746
  • pan locus tag?: SAUPAN004243000
  • symbol: SAOUHSC_01746
  • pan gene symbol?: secDF
  • synonym:
  • product: bifunctional preprotein translocase subunit SecD/SecF

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01746
  • symbol: SAOUHSC_01746
  • product: bifunctional preprotein translocase subunit SecD/SecF
  • replicon: chromosome
  • strand: -
  • coordinates: 1649782..1652061
  • length: 2280
  • essential: yes [1] DEG other strains

⊟Accession numbers[edit | edit source]

  • Gene ID: 3920545 NCBI
  • RefSeq: YP_500252 NCBI
  • BioCyc: G1I0R-1620 BioCyc
  • MicrobesOnline: 1290166 MicrobesOnline

⊟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
    GTGAAGAAAAGTAGTAGAATAATTGCGTTCTTGCTTTTAGTCGTATTGTTGTTTGCCGGA
    ATGGCTGCAACTTATAAAAGTGTTATAAAGAATGTCAATTTAGGACTTGATTTGCAAGGT
    GGATTTGAGGTGCTTTATCAAGTCGATCCTTTAAATAAAGGCGACAAAATAGATAAAAAA
    GCCTTACAATCAACAGCGCAAACATTAGAAAATCGTGTTAACGTTTTAGGTGTTTCGGAA
    CCTAAAATTCAAGTTGAAGAACCTAATAGAATTAGAGTACAACTTGCTGGTGTAACAGAC
    CAGAATGAAGCACGTAAAATTTTATCTTCTCAAGCTAATTTAACAATTCGCGATGCAGAA
    GATAAAGTAAAATTAAGCGGTTCTGATATTAAACAGGGATCTGCCAAACAAGAATTTAAA
    CAGGAAACAAACCAGCCTACAGTTACTTTTAAAGTAAAAGACAAAAACAAATTTAAAAAA
    GTAACGGAAGAAATCTCTAAGAAACGTGATAATGTCATGGTTGTTTGGTTAGATTTCAAA
    AAAGGTGACAGCTATAAAAAAGAAGCACAAAAGAAAAACCCTAAATTTATTTCTGCAGCA
    AGTGTTGATCAACCAATCAATTCTGATAGCGTAGAAATCTCGGGTGGATTTAAAGGACAA
    GAAGGCGTTAAAAAAGCAAAACAAATCGCCGAATTGTTAAATGCAGGTTCTTTACCAGTT
    GACTTGAAAGAAATTTATTCAAACTCAGTAGGTGCCCAATTTGGTCAAGATGCATTAGAT
    AAAACTGTGTTTGCATCGTTTATTGGTGTAGCATTAATTTATTTATTCATGCTTGGATTC
    TACCGATTACCTGGTTTAGTAGCGATTATTGCATTGACAACTTATATCTATCTAACGTTA
    GTAGCATTTAATTTCATTTCCGGGGTTCTAACTTTACCAGGATTAGCGGCGTTGGTATTA
    GGTGTAGGTATGGCTGTAGATGCCAATATTATCATGTATGAGCGTATTAAGGATGAACTT
    CGAATAGGTAGAACGATAAAGCAAGCCTTTTCTAAAGCAAACAAAAGTTCATTCCTAACA
    ATTTTTGATTCTAACTTAACAACAGTTATCGCCGCAGCAGTATTATTCTTCTTCGGTGAA
    AGTTCAGTTAAAGGTTTCGCGACAATGTTATTATTAGGTATTCTAATGATCTTTGTTACA
    GCCGTGTTCTTATCAAGATTCTTATTATCATTACTTGTTTCATCAAATATATTCAAAAAT
    CAATTTTGGTTATTTGGTGTTAAAAAGAATAAACGACATGATATTAATGAAGGTGTAGAT
    GTTCATGACCTTAAAACTTCATTCGAGAAATGGAATTTTGTTAAATTAGCTAAGCCATTA
    ATTGGAGTAAGTATTTTAATTGTAGTTGTCGGTTTAGTTATTCTTTATATCTTCAAGTTA
    AACTTAGGAATTGATTTCTCAAGTGGTACACGCGTAGATTTCCAATCTAAACAAGCAATT
    ACTCAACAAAAGGTAGAGCAAGTTGTAAAAGATAGTGGACTTAAAGCGGATCAAATTCAG
    ATCAATGGTAAAGACAATAAAGTAGCAACTGTTCAATTTAAAGACGATTTAACGCGTGCT
    CAAGATAATAAATTGAGTGATAATATTAAATCGAAATTCGGTGACACACCTCAAATTAAC
    ACTGTATCACCAATTATTGGACAGGAATTAGCAAAAAATGCAATGCTTGCATTAATCTAT
    GCATCGATAGGTATCATCATCTATGTATCATTACGATTTGAATGGCGCATGGGTCTTTCA
    TCTGTATTGGCATTATTACATGATGTATTCATTATAGTAGCGATTTTCAGTTTATTTAGA
    ATTGAAGTAGATTTAACATTTATCGCCGCTGTATTAACAATTGTCGGTTATTCAATTAAT
    GATACAATCGTAACGTTTGACCGTGTACGTGAAAACTTACAAAAGGTTAAAGTGATTACG
    ACAACAGAACAAATTGATGATATCGTTAATAGATCAATTAGACAGACAATGACACGTTCA
    ATTAATACAGTATTAACAGTTATTGTAGTAGTAGTTGCTATACTATTCTTCGGTGCTCCT
    ACGATATTCAACTTTACTTTAGCATTATTTATCGGATTGATTTCTGGTGTATTCTCTTCA
    ATCTTCATTGCCGTTCCGCTATGGGGAATAATGAAAAAACGTCAGTTGAAAAAATCGCCG
    AAACACAAATTAGTTGTATATAAAGAAAAGAAATCGAACGATGAAAAGATTTTAGTTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
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    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2220
    2280

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01746
  • symbol: SAOUHSC_01746
  • description: bifunctional preprotein translocase subunit SecD/SecF
  • length: 759
  • theoretical pI: 10.3191
  • theoretical MW: 84253.3
  • GRAVY: 0.234124

⊟Function[edit | edit source]

  • ⊞TIGRFAM:
    Genetic information processing Protein fate Protein and peptide secretion and trafficking protein-export membrane protein SecD (TIGR01129; HMM-score: 386.9)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking protein-export membrane protein, SecD/SecF family (TIGR00916; HMM-score: 338.2)
    and 3 more
    Genetic information processing Protein fate Protein and peptide secretion and trafficking protein-export membrane protein SecF (TIGR00966; HMM-score: 276.2)
    Metabolism Transport and binding proteins Unknown substrate efflux transporter, putative, hydrophobe/amphiphile efflux-3 (HAE3) family (TIGR00921; HMM-score: 58.2)
    Metabolism Transport and binding proteins Unknown substrate transport protein (TIGR00833; HMM-score: 27.2)
  • ⊞TheSEED  :
    • Protein translocase subunit SecD
    • Protein translocase subunit SecF
    tRNA synthetase relationships  Protein-export membrane protein SecD (TC 3.A.5.1.1)
    and 1 more
    tRNA synthetase relationships  Protein-export membrane protein SecF (TC 3.A.5.1.1)
  • ⊞PFAM:
    RND_permease (CL0322) SecD_SecF_C; Protein export membrane protein SecD/SecF, C-terminal (PF02355; HMM-score: 261.1)
    and 7 more
    SecD_1st; Protein translocase subunit SecDF, P1 domain, N-terminal (PF21760; HMM-score: 67.2)
    SecDF_P1_head; SecDF, P1 head subdomain (PF22599; HMM-score: 48.1)
    no clan defined Sec_GG; SecD/SecF GG Motif (PF07549; HMM-score: 40.1)
    RND_permease (CL0322) MMPL; MMPL family (PF03176; HMM-score: 39)
    POTRA (CL0191) POTRA; Surface antigen variable number repeat (PF07244; HMM-score: 13.1)
    no clan defined Selenoprotein_S; Selenoprotein S (SelS) (PF06936; HMM-score: 12)
    BRCT-like (CL0459) RTT107_BRCT_6; Regulator of Ty1 transposition protein 107 BRCT domain (PF16771; HMM-score: 8.8)

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

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

⊟Localization[edit | edit source]

  • ⊞PSORTb: Cytoplasmic Membrane
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 10
    • Cellwall Score: 0
    • Extracellular Score: 0
    • Internal Helices: 12
  • ⊞DeepLocPro: Cytoplasmic Membrane
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 0.9997
    • Cell wall & surface Score: 0
    • Extracellular Score: 0.0003
  • ⊞LocateP: Multi-transmembrane
    • Prediction by SwissProt Classification: Membrane
    • Pathway Prediction: Sec-(SPI)
    • Intracellular possibility: 0
    • Signal peptide possibility: 1
    • N-terminally Anchored Score: -1
    • Predicted Cleavage Site: No CleavageSite
  • ⊞SignalP: Signal peptide SP(Sec/SPI) length 22 aa
    • SP(Sec/SPI): 0.427618
    • TAT(Tat/SPI): 0.00166
    • LIPO(Sec/SPII): 0.373685
    • Cleavage Site: CS pos: 22-23. GMA-AT. Pr: 0.1458
  • predicted transmembrane helices (TMHMM): 12

⊟Accession numbers[edit | edit source]

  • GI: 161353523 NCBI
  • RefSeq: YP_500252 NCBI
  • UniProt: Q2FXT8 UniProt
  • STRING: 93061.SAOUHSC_01746 STRING

⊟Protein sequence[edit | edit source]

  • MKKSSRIIAFLLLVVLLFAGMAATYKSVIKNVNLGLDLQGGFEVLYQVDPLNKGDKIDKKALQSTAQTLENRVNVLGVSEPKIQVEEPNRIRVQLAGVTDQNEARKILSSQANLTIRDAEDKVKLSGSDIKQGSAKQEFKQETNQPTVTFKVKDKNKFKKVTEEISKKRDNVMVVWLDFKKGDSYKKEAQKKNPKFISAASVDQPINSDSVEISGGFKGQEGVKKAKQIAELLNAGSLPVDLKEIYSNSVGAQFGQDALDKTVFASFIGVALIYLFMLGFYRLPGLVAIIALTTYIYLTLVAFNFISGVLTLPGLAALVLGVGMAVDANIIMYERIKDELRIGRTIKQAFSKANKSSFLTIFDSNLTTVIAAAVLFFFGESSVKGFATMLLLGILMIFVTAVFLSRFLLSLLVSSNIFKNQFWLFGVKKNKRHDINEGVDVHDLKTSFEKWNFVKLAKPLIGVSILIVVVGLVILYIFKLNLGIDFSSGTRVDFQSKQAITQQKVEQVVKDSGLKADQIQINGKDNKVATVQFKDDLTRAQDNKLSDNIKSKFGDTPQINTVSPIIGQELAKNAMLALIYASIGIIIYVSLRFEWRMGLSSVLALLHDVFIIVAIFSLFRIEVDLTFIAAVLTIVGYSINDTIVTFDRVRENLQKVKVITTTEQIDDIVNRSIRQTMTRSINTVLTVIVVVVAILFFGAPTIFNFTLALFIGLISGVFSSIFIAVPLWGIMKKRQLKKSPKHKLVVYKEKKSNDEKILV

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [2] [3]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

  • MicrobesOnline: no polycistronic organisation predicted

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

  • S.aureus Expression Data Browser:  [4] 
    Expression Data Browser
    ⊟Multi-gene expression profiles



    Click on any data point to display a description of the corresponding condition!

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

  • Aureolib: no data available

⊟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. ↑ Roy R Chaudhuri, Andrew G Allen, Paul J Owen, Gil Shalom, Karl Stone, Marcus Harrison, Timothy A Burgis, Michael Lockyer, Jorge Garcia-Lara, Simon J Foster, Stephen J Pleasance, Sarah E Peters, Duncan J Maskell, Ian G Charles
    Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH).
    BMC Genomics: 2009, 10;291
    [PubMed:19570206] [WorldCat.org] [DOI] (I e)
  2. ↑ 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)
  3. ↑ 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)
  4. ↑ 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]

Chantal Quiblier, Annelies S Zinkernagel, Reto A Schuepbach, Brigitte Berger-Bächi, Maria M Senn
Contribution of SecDF to Staphylococcus aureus resistance and expression of virulence factors.
BMC Microbiol: 2011, 11;72
[PubMed:21486434] [WorldCat.org] [DOI] (I e)

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  • This page was last edited on 10 March 2016, at 19:32.
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