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NCBI: 10-JUN-2013

Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1204 [new locus tag: SACOL_RS06165 ]
  • pan locus tag?: SAUPAN003462000
  • symbol: ylmH
  • pan gene symbol?:
  • synonym:
  • product: YlmH protein

Genome View[edit | edit source]

Gene[edit | edit source]

General[edit | edit source]

  • type: CDS
  • locus tag: SACOL1204 [new locus tag: SACOL_RS06165 ]
  • symbol: ylmH
  • product: YlmH protein
  • replicon: chromosome
  • strand: +
  • coordinates: 1209255..1210034
  • length: 780
  • 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
    GTGATTAACATAGATATTTATCAACACTTTAGACAGGAAGAATACGAATTAATTGATCAG
    CTAACGGATAAATGTGATCAAGCGGAACAGCATTATGCACCAGTATTAACGCATTTTTTA
    GATCCAAGAGGGCAATATATATTGGAAGTGATTTGTGGCAGTTATGAAGATTTAAACGTA
    TCTTTTTATGGTGGACCTAATGCTGAAAGAAAAAGAGCAATCATTTCGCCGAACTATTAT
    GAACCTAAAGAAAGCGACTTTGAATTAACTTTAATGGAAATAGATTATCCTGAAAAATTC
    GTCACTTTAAAACATCAACATATTTTAGGGACATTAATGTCTTTAGGTATCGAACGCGAA
    CAAGTTGGAGATATAATTGTGAATGAACGAATTCAATTTGTTTTGACAAGTAGATTGGAA
    TCATTTATTATGTTAGAATTACAACGTATTAAAGGCGCATCAGTTAAACTTTATACTATT
    CCAGTAACAGATATGATACAATCTAATGAGAATTGGAAAAATGAAAGTGCAACAGTTAGT
    TCTTTAAGGTTAGATGTTGTTATTAAAGAAATGATACGTAAATCACGTACGATTGCGAAA
    CAACTAATCGAAAAAAAACGTGTTAAAGTGAATCACACTATTGTTGATTCAGCAGATTTT
    CAATTACAAGCAAATGATTTAATATCCATCCAAGGTTTTGGTAGAGCACACATTACTGAC
    TTAGGTGGTAAAACTAAAAAAGATAAAACGCACATTACCTATAGAACATTATTCAAATAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780

Protein[edit | edit source]

General[edit | edit source]

  • locus tag: SACOL1204 [new locus tag: SACOL_RS06165 ]
  • symbol: YlmH
  • description: YlmH protein
  • length: 259
  • theoretical pI: 6.51879
  • theoretical MW: 30056.3
  • GRAVY: -0.370656

Function[edit | edit source]

  • TIGRFAM:
    Metabolism Energy metabolism Photosynthesis photosystem II S4 domain protein (TIGR03069; HMM-score: 92)
    and 3 more
    Genetic information processing Protein synthesis Ribosomal proteins: synthesis and modification ribosomal protein uS4 (TIGR01017; HMM-score: 26)
    Genetic information processing Protein synthesis tRNA and rRNA base modification pseudouridine synthase, RluA family (TIGR00005; EC 5.4.99.-; HMM-score: 15.4)
    Unknown function General TlyA family rRNA methyltransferase/putative hemolysin (TIGR00478; HMM-score: 15.2)
  • TheSEED:  
    Clustering-based subsystems Cell Division Cell Division Cluster  FIG001583: hypothetical protein, contains S4-like RNA binding domain
  • PFAM:
    S4 (CL0492) S4; S4 domain (PF01479; HMM-score: 39.2)
    and 1 more
    no clan defined M11L; Apoptosis regulator M11L like (PF11099; HMM-score: 11.7)

Structure, modifications & interactions[edit | edit source]

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

Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • 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): 0.004583
    • TAT(Tat/SPI): 0.00045
    • LIPO(Sec/SPII): 0.000569
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit | edit source]

Protein sequence[edit | edit source]

  • MINIDIYQHFRQEEYELIDQLTDKCDQAEQHYAPVLTHFLDPRGQYILEVICGSYEDLNVSFYGGPNAERKRAIISPNYYEPKESDFELTLMEIDYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVNERIQFVLTSRLESFIMLELQRIKGASVKLYTIPVTDMIQSNENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEKKRVKVNHTIVDSADFQLQANDLISIQGFGRAHITDLGGKTKKDKTHITYRTLFK

Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [1] [2] [3]
    quantitative data / protein copy number per cell: 42 [4]

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. 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)

Relevant publications[edit | edit source]