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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00248
  • pan locus tag?: SAUPAN001163000
  • symbol: SAOUHSC_00248
  • pan gene symbol?: lytM
  • synonym:
  • product: peptidoglycan hydrolase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_00248
  • symbol: SAOUHSC_00248
  • product: peptidoglycan hydrolase
  • replicon: chromosome
  • strand: +
  • coordinates: 267753..268703
  • length: 951
  • essential: no DEG 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
    ATGAAAAAATTAACAGCAGCAGCGATTGCAACGATGGGCTTCGCTACATTTACAATGGCG
    CATCAAGCAGATGCAGCAGAAACGACAAACACCCAACAAGCACATACACAAATGTCAACA
    CAATCACAAGACGTATCTTATGGTACTTATTATACAATTGATTCTAATGGGGATTATCAT
    CACACACCTGATGGTAACTGGAATCAAGCAATGTTTGATAATAAAGAATATAGCTATACA
    TTCGTAGATGCTCAAGGACATACGCATTATTTTTATAACTGTTATCCAAAAAATGCAAAT
    GCCAATGGAAGCGGCCAAACATATGTGAATCCAGCAACAGCAGGAGATAACAATGACTAC
    ACAGCGAGTCAAAGCCAACAGCATATTAATCAATATGGTTATCAATCAAATGTAGGTCCA
    GACGCGAGCTATTATTCACATAGTAACAACAACCAAGCGTATAACAGCCATGATGGTAAT
    GGAAAGGTCAATTATCCTAATGGCACATCTAATCAAAATGGTGGATCAGCAAGTAAAGCG
    ACAGCTAGTGGTCATGCGAAAGACGCAAGCTGGTTAACAAGTCGTAAACAACTACAACCA
    TATGGACAATATCACGGTGGTGGTGCGCATTACGGTGTCGACTATGCAATGCCTGAAAAT
    TCACCAGTTTACTCATTAACTGATGGTACAGTAGTACAAGCAGGTTGGAGTAACTATGGT
    GGCGGCAATCAAGTAACGATTAAAGAAGCGAACAGTAATAACTACCAATGGTATATGCAT
    AATAATCGTTTAACTGTTTCAGCTGGTGATAAAGTCAAAGCTGGTGACCAAATTGCATAT
    TCAGGTAGTACGGGTAATTCAACAGCGCCTCACGTACACTTCCAACGTATGTCTGGTGGC
    ATCGGTAATCAATATGCAGTAGACCCAACGTCATACTTGCAAAGTAGATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    951

Protein[edit source | edit]

Protein Data Bank: 1QWY
Protein Data Bank: 2B0P
Protein Data Bank: 2B13
Protein Data Bank: 2B44
Protein Data Bank: 4ZYB

General[edit source | edit]

  • locus tag: SAOUHSC_00248
  • symbol: SAOUHSC_00248
  • description: peptidoglycan hydrolase
  • length: 316
  • theoretical pI: 6.67629
  • theoretical MW: 34316.3
  • GRAVY: -0.94462

Function[edit source | edit]

  • reaction:
    EC 3.4.24.75?  ExPASy
    LysostaphinHydrolysis of the -Gly-|-Gly- bond in the pentaglycine inter-peptide link joining staphylococcal cell wall peptidoglycans
  • TIGRFAM:
    Genetic information processingTranscriptionDNA-dependent RNA polymeraseDNA-directed RNA polymerase, beta' subunit (TIGR02386; EC 2.7.7.6; HMM-score: 11.2)
  • TheSEED:  
    Protein MetabolismProtein degradationEC 3.4.24.- Metalloendopeptidases Glycyl-glycine endopeptidase LytM precursor (EC 3.4.24.75) 
  • PFAM:
    Hybrid (CL0105) Peptidase_M23; Peptidase family M23 (PF01551; HMM-score: 94.2)
    no clan definedDUF4124; Domain of unknown function (DUF4124) (PF13511; HMM-score: 6.8)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors: Zn2+
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • PSORTb: Extracellular
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0
    • Extracellular Score: 10
    • Internal Helices: 0
  • LocateP: Secretory(released) (with CS)
    • Prediction by SwissProt Classification: Extracellular
    • Pathway Prediction: Sec-(SPI)
    • Intracellular Possibility: -0.17
    • Signal Peptide Possibility: 1
    • N-terminally Anchored Score: -2
    • Predicted Cleavage Site: HQADAAET
  • SignalP: Signal peptide length 26 aa
    • Ymax: 0.846
    • Ymax_pos: 26
    • Cmax: 0.823
    • Cmax_pos: 26
    • Smax: 0.952
    • Smax_pos: 19
    • Smean: 0.86
    • D: 0.852
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MKKLTAAAIATMGFATFTMAHQADAAETTNTQQAHTQMSTQSQDVSYGTYYTIDSNGDYHHTPDGNWNQAMFDNKEYSYTFVDAQGHTHYFYNCYPKNANANGSGQTYVNPATAGDNNDYTASQSQQHINQYGYQSNVGPDASYYSHSNNNQAYNSHDGNGKVNYPNGTSNQNGGSASKATASGHAKDASWLTSRKQLQPYGQYHGGGAHYGVDYAMPENSPVYSLTDGTVVQAGWSNYGGGNQVTIKEANSNNYQWYMHNNRLTVSAGDKVKAGDQIAYSGSTGNSTAPHVHFQRMSGGIGNQYAVDPTSYLQSR

Experimental data[edit source | edit]

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: no data available

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. 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);3648-3661
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. 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 source | edit]

L Ramadurai, K J Lockwood, M J Nadakavukaren, R K Jayaswal
Characterization of a chromosomally encoded glycylglycine endopeptidase of Staphylococcus aureus.
Microbiology (Reading, Engl.): 1999, 145 ( Pt 4);801-8
[PubMed:10220159] [WorldCat.org] [DOI] (P p)
S S Ingavale, W Van Wamel, A L Cheung
Characterization of RAT, an autolysis regulator in Staphylococcus aureus.
Mol. Microbiol.: 2003, 48(6);1451-66
[PubMed:12791130] [WorldCat.org] (P p)
Sergey G Odintsov, Izabela Sabala, Malgorzata Marcyjaniak, Matthias Bochtler
Latent LytM at 1.3A resolution.
J. Mol. Biol.: 2004, 335(3);775-85
[PubMed:14687573] [WorldCat.org] (P p)
Małgorzata Firczuk, Artur Mucha, Matthias Bochtler
Crystal structures of active LytM.
J. Mol. Biol.: 2005, 354(3);578-90
[PubMed:16269153] [WorldCat.org] [DOI] (P p)
Mark J J B Sibbald, Theresa Winter, Magdalena M van der Kooi-Pol, G Buist, E Tsompanidou, Tjibbe Bosma, Tina Schäfer, Knut Ohlsen, Michael Hecker, Haike Antelmann, Susanne Engelmann, Jan Maarten van Dijl
Synthetic effects of secG and secY2 mutations on exoproteome biogenesis in Staphylococcus aureus.
J. Bacteriol.: 2010, 192(14);3788-800
[PubMed:20472795] [WorldCat.org] [DOI] (I p)
N Mani, P Tobin, R K Jayaswal
Isolation and characterization of autolysis-defective mutants of Staphylococcus aureus created by Tn917-lacZ mutagenesis.
J. Bacteriol.: 1993, 175(5);1493-9
[PubMed:8095258] [WorldCat.org] (P p)
L Ramadurai, R K Jayaswal
Molecular cloning, sequencing, and expression of lytM, a unique autolytic gene of Staphylococcus aureus.
J. Bacteriol.: 1997, 179(11);3625-31
[PubMed:9171409] [WorldCat.org] (P p)