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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2105 [new locus tag: SACOL_RS11015 ]
  • pan locus tag?: SAUPAN005404000
  • symbol: glyA
  • pan gene symbol?: glyA
  • synonym:
  • product: serine hydroxymethyltransferase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2105 [new locus tag: SACOL_RS11015 ]
  • symbol: glyA
  • product: serine hydroxymethyltransferase
  • replicon: chromosome
  • strand: -
  • coordinates: 2165590..2166828
  • length: 1239
  • 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
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    ATGTCTTATATCACCAAGCAAGATAAAGTTATCGCAGAAGCAATCGAGAGAGAATTTCAG
    AGACAAAATAGCAACATAGAGTTAATCGCATCGGAAAATTTTGTATCGGAAGCGGTTATG
    GAAGCACAAGGTTCAGTGTTGACTAATAAGTATGCTGAAGGCTATCCAGGACGCCGATAT
    TATGGTGGCTGTGAGTTTGTAGATGTTACTGAAAGCATCGCAATTGATCGTGCTAAAGCA
    TTGTTTGGAGCTGAACATGTCAATGTTCAACCACATTCAGGTTCACAAGCGAACATGGCT
    GTTTACTTAGTTGCATTAGAAATGGGCGACACAGTTTTAGGTATGAATTTGAGTCATGGT
    GGTCACTTGACACATGGAGCGCCTGTTAATTTTAGTGGTAAATTCTACAATTTCGTTGAA
    TATGGAGTAGATAAAGACACAGAACGAATCAATTATGATGAAGTTCGTAAATTAGCGTTA
    GAGCATAAGCCTAAGCTTATTGTGGCAGGAGCATCAGCATATTCAAGAACAATTGACTTC
    AAAAAGTTTAAAGAAATCGCAGATGAAGTAAACGCTAAGTTAATGGTAGACATGGCACAT
    ATTGCAGGATTAGTAGCGGCAGGTTTACATCCAAATCCAGTAGAATATGCTGATTTTGTA
    ACAACTACAACACACAAAACATTACGCGGACCACGTGGTGGTATGATTTTATGTAAGGAA
    GAATATAAAAAAGACATAGATAAAACAATTTTCCCTGGTATTCAAGGTGGACCTCTTGAG
    CATGTTATTGCAGCAAAAGCAGTTGCTTTTGGAGAAGCGTTAGAAAATAATTTCAAAACG
    TATCAACAACAAGTGGTTAAAAACGCAAAAGTTCTTGCAGAAGCATTAATTAATGAAGGA
    TTTAGAATTGTTTCTGGCGGTACAGATAATCACTTAGTAGCTGTTGATGTAAAAGGGTCT
    ATAGGACTTACTGGTAAAGAAGCTGAAGAGACTTTAGATTCAGTTGGTATCACATGTAAC
    AAAAATACCATTCCGTTCGATCAAGAAAAACCTTTTGTAACGAGTGGTATACGTTTAGGT
    ACACCTGCTGCAACAACGCGTGGATTTGATGAAAAAGCTTTTGAGGAAGTTGCAAAAATC
    ATCAGTTTAGCATTGAAAAATAGTAAAGATGAAGAAAAATTACAACAAGCTAAAGAACGC
    GTTGCGAAATTAACAGCTGAATATCCTCTATATCAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1239

⊟Protein[edit | edit source]

Protein Data Bank: 3PGY

⊟General[edit | edit source]

  • locus tag: SACOL2105 [new locus tag: SACOL_RS11015 ]
  • symbol: GlyA
  • description: serine hydroxymethyltransferase
  • length: 412
  • theoretical pI: 5.99288
  • theoretical MW: 45172
  • GRAVY: -0.269417

⊟Function[edit | edit source]

  • reaction:
    EC 2.1.2.1?  ExPASy
    Glycine hydroxymethyltransferase 5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine
  • TIGRFAM:
    Cellular processes Cellular processes Biosynthesis of natural products fluorothreonine transaldolase (TIGR04506; EC 2.2.1.8; HMM-score: 114.6)
    and 7 more
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Biotin 8-amino-7-oxononanoate synthase (TIGR00858; EC 2.3.1.47; HMM-score: 26.8)
    Unknown function Enzymes of unknown specificity cysteine desulfurase family protein (TIGR01977; HMM-score: 22.3)
    Unknown function Enzymes of unknown specificity pyridoxal phosphate enzyme, MJ0158 family (TIGR03576; HMM-score: 20)
    Metabolism Energy metabolism Amino acids and amines glycine C-acetyltransferase (TIGR01822; EC 2.3.1.29; HMM-score: 18.8)
    UDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine transaminase (TIGR03588; EC 2.6.1.92; HMM-score: 16.6)
    dTDP-4-dehydro-6-deoxyglucose aminotransferase (TIGR04427; EC 2.-.-.-; HMM-score: 14.1)
    putative methanogenesis marker protein 8 (TIGR03275; HMM-score: 12.8)
  • TheSEED:  
    Amino Acids and Derivatives Alanine, serine, and glycine Glycine and Serine Utilization  Serine hydroxymethyltransferase (EC 2.1.2.1)
    and 9 more
    Glycine Biosynthesis  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Glycine cleavage system  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Serine Biosynthesis  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Carbohydrates One-carbon Metabolism Serine-glyoxylate cycle  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Cofactors, Vitamins, Prosthetic Groups, Pigments Folate and pterines Folate Biosynthesis  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Test - Folate  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Lipoic acid BEY LIP  Serine hydroxymethyltransferase (EC 2.1.2.1)
    Stress Response Stress Response - no subcategory Flavohaemoglobin  Serine hydroxymethyltransferase (EC 2.1.2.1)
    LMPTP YwlE cluster  Serine hydroxymethyltransferase (EC 2.1.2.1)
  • PFAM:
    PLP_aminotran (CL0061) SHMT; Serine hydroxymethyltransferase (PF00464; HMM-score: 599.8)
    and 5 more
    Beta_elim_lyase; Beta-eliminating lyase (PF01212; HMM-score: 31.1)
    Aminotran_1_2; Aminotransferase class I and II (PF00155; HMM-score: 25.1)
    DegT_DnrJ_EryC1; DegT/DnrJ/EryC1/StrS aminotransferase family (PF01041; HMM-score: 16.6)
    Aminotran_5; Aminotransferase class-V (PF00266; HMM-score: 14.2)
    Cys_Met_Meta_PP; Cys/Met metabolism PLP-dependent enzyme (PF01053; HMM-score: 13)

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

  • domains:
  • modifications:
  • cofactors: pyridoxal 5'-phosphate
  • effectors:
  • protein partners:
    SACOL1102(pdhA)pyruvate dehydrogenase complex E1 component subunit alpha  [1] (data from MRSA252)
    SACOL2227(rplE)50S ribosomal protein L5  [1] (data from MRSA252)
    SACOL2222(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    SACOL0594(tuf)elongation factor Tu  [1] (data from MRSA252)
    SACOL2104(upp)uracil phosphoribosyltransferase  [1] (data from MRSA252)
    SACOL0211acetyl-CoA acetyltransferase  [1] (data from MRSA252)

⊟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): 0.005746
    • TAT(Tat/SPI): 0.001573
    • LIPO(Sec/SPII): 0.000815
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGSQANMAVYLVALEMGDTVLGMNLSHGGHLTHGAPVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLYQ

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [2] [3] [4] [5]
    quantitative data / protein copy number per cell: 2758 [6]

⊟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: 19.22 h [7]

⊟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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)
  2. ↑ 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)
  3. ↑ Kristina Hempel, Jan Pané-Farré, Andreas Otto, Susanne Sievers, Michael Hecker, Dörte Becher
    Quantitative cell surface proteome profiling for SigB-dependent protein expression in the human pathogen Staphylococcus aureus via biotinylation approach.
    J Proteome Res: 2010, 9(3);1579-90
    [PubMed:20108986] [WorldCat.org] [DOI] (I p)
  4. ↑ 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)
  5. ↑ 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)
  6. ↑ 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)
  7. ↑ Stephan Michalik, Jörg Bernhardt, Andreas Otto, Martin Moche, Dörte Becher, Hanna Meyer, Michael Lalk, Claudia Schurmann, Rabea Schlüter, Holger Kock, Ulf Gerth, Michael Hecker
    Life and death of proteins: a case study of glucose-starved Staphylococcus aureus.
    Mol Cell Proteomics: 2012, 11(9);558-70
    [PubMed:22556279] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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