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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1594 [new locus tag: SACOL_RS08120 ]
  • pan locus tag?: SAUPAN004113000
  • symbol: SACOL1594
  • pan gene symbol?: gcvPA
  • synonym:
  • product: glycine dehydrogenase subunit 1

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SACOL1594 [new locus tag: SACOL_RS08120 ]
  • symbol: SACOL1594
  • product: glycine dehydrogenase subunit 1
  • replicon: chromosome
  • strand: -
  • coordinates: 1627412..1628758
  • length: 1347
  • essential: unknown 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
    961
    1021
    1081
    1141
    1201
    1261
    1321
    GTGAGTCATCGTTATATACCTTTAACTGAAAAAGACAAGCAAGAAATGTTACAAACAATT
    GGTGCAAAATCTATAGGAGAATTATTCGGTGATGTACCAAGTGACATTTTATTAAATAGA
    GATTTAAATATTGCTGAAGGCGAAGCGGAAACAACGTTACTTAGAAGATTAAATCGCATT
    GCAAGCAAGAATATCACTAAAGAAACGCATACATCATTTTTGGGTGCTGGTGTTTATGAT
    CATTACGCGCCATCAGTTGTGGATGCTATGATTTCAAGATCAGAATTTTACACAGCATAT
    ACGCCATATCAACCGGAAATTTCTCAAGGTGAATTACAAGCCATTTTTGAGTTCCAAACT
    TTAATTTGTGAATTAACAGATATGGATGTAGCAAATTCTTCTATGTATGATGGGATGACT
    AGCTTTGCTGAAGCATGTATCTTAGCATTTAGTCAAACAAAGAAAAATAAAATTGTAGTC
    TCAAAAGGTTTACATTATCAAGCATTACAAGTACTTCATACTTATGCTAAGACGCGTAAG
    GAATTCGAAGTAGTGGAAATCGATTTAGATGGCACTGTTACAGATTTGAAAAAATTAGAA
    GCAGCAGTGGATGATGAAACAGCAGCTGTTGCAGTACAATATCCAAACTTTTACGGTTCA
    ATTGAAGATCTTAAAAAGATTCATAGCTTTATTGAAGATAAAAAAGCATTATTTATCGTA
    TATGCAAATCCATTAGCATTGGGATTACTTACACCTCCAGGTTCATTTGGTGCAGATATT
    GTTGTAGGTGATACTCAGCCATTCGGAATTCCTGCTCAATTCGGTGGGCCACATTGTGGA
    TATTTTGCAACGACGAAAAAGTTAATGCGTAAAGTGCCAGGTAGATTAGTCGGTCAAACA
    CAAGATGATGAAGGTAATCGTGGCTTTGTATTAACATTACAAGCACGTGAACAACATATT
    CGACGCGATAAAGCGACATCTAATATTTGTTCTAACCAAGCATTAAATGCTTTAGCGTCA
    TCAATTGCAATGTCAGCACTTGGTAAACAAGGTATCTATGATATTGCAGTTCAAAATATA
    GAACATGCTAACTATGCTAAACAACAATTTATTAAAAAAGGTTTTGAAGTATTAGATGGT
    ACATCTTTCAATGAGTTTGTAGTCAAATTTGACAAACCAATTCAACAAGTTAACGAGGAA
    TTAGTGAAGTACAATATTATCGGTGGTTTTGATTTAGGTGTTGTTTCAGACGACTTTAAA
    AATCACATGTTAATAGCTGTAACTGAATTAAGAACAAAAGATGAAATCGATACATTTGTA
    GAAAAGGCTGGTGAGTTAAATGACTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1347

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SACOL1594 [new locus tag: SACOL_RS08120 ]
  • symbol: SACOL1594
  • description: glycine dehydrogenase subunit 1
  • length: 448
  • theoretical pI: 4.95429
  • theoretical MW: 49715.1
  • GRAVY: -0.202232

Function[edit source | edit]

  • reaction:
    EC 1.4.4.2?  ExPASy
    Glycine dehydrogenase (aminomethyl-transferring)Glycine + [glycine-cleavage complex H protein]-N6-lipoyl-L-lysine = [glycine-cleavage complex H protein]-S-aminomethyl-N6-dihydrolipoyl-L-lysine + CO2
  • TIGRFAM:
    MetabolismEnergy metabolismAmino acids and aminesglycine dehydrogenase (TIGR00461; EC 1.4.4.2; HMM-score: 318)
    cysteine desulfurase NifS (TIGR03402; EC 2.8.1.7; HMM-score: 27.2)
    Genetic information processingProtein synthesistRNA and rRNA base modificationcysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 25.8)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOthercysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 25.8)
    Unknown functionEnzymes of unknown specificitycysteine desulfurase family protein (TIGR01977; HMM-score: 23.7)
    Genetic information processingDNA metabolismRestriction/modificationcysteine desulfurase DndA (TIGR03235; EC 2.8.1.7; HMM-score: 20.3)
    MetabolismEnergy metabolismAmino acids and aminestyrosine aminotransferase (TIGR01264; EC 2.6.1.5; HMM-score: 14.7)
    cysteine desulfurase, NifS family (TIGR03403; EC 2.8.1.7; HMM-score: 12.3)
    tyrosine/nicotianamine family aminotransferase (TIGR01265; HMM-score: 11.9)
  • TheSEED:  
    Amino Acids and DerivativesAlanine, serine, and glycineGlycine and Serine Utilization Glycine dehydrogenase [decarboxylating] (glycine cleavage system P1 protein) (EC 1.4.4.2) 
    Alanine, serine, and glycineGlycine cleavage system Glycine dehydrogenase [decarboxylating] (glycine cleavage system P1 protein) (EC 1.4.4.2) 
  • PFAM:
    PLP_aminotran (CL0061) GDC-P; Glycine cleavage system P-protein (PF02347; HMM-score: 507.4)
    Aminotran_5; Aminotransferase class-V (PF00266; HMM-score: 22.7)

Structure, modifications & interactions[edit source | edit]

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

Localization[edit source | edit]

  • 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
    • Ymax: 0.123
    • Ymax_pos: 23
    • Cmax: 0.128
    • Cmax_pos: 23
    • Smax: 0.15
    • Smax_pos: 21
    • Smean: 0.112
    • D: 0.119
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MSHRYIPLTEKDKQEMLQTIGAKSIGELFGDVPSDILLNRDLNIAEGEAETTLLRRLNRIASKNITKETHTSFLGAGVYDHYAPSVVDAMISRSEFYTAYTPYQPEISQGELQAIFEFQTLICELTDMDVANSSMYDGMTSFAEACILAFSQTKKNKIVVSKGLHYQALQVLHTYAKTRKEFEVVEIDLDGTVTDLKKLEAAVDDETAAVAVQYPNFYGSIEDLKKIHSFIEDKKALFIVYANPLALGLLTPPGSFGADIVVGDTQPFGIPAQFGGPHCGYFATTKKLMRKVPGRLVGQTQDDEGNRGFVLTLQAREQHIRRDKATSNICSNQALNALASSIAMSALGKQGIYDIAVQNIEHANYAKQQFIKKGFEVLDGTSFNEFVVKFDKPIQQVNEELVKYNIIGGFDLGVVSDDFKNHMLIAVTELRTKDEIDTFVEKAGELND

Experimental data[edit source | edit]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [1] [2] [3] [4]
    quantitative data / protein copy number per cell: 396 [5]

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: 995.64 h [6]

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. 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, 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)
  3. 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)
  4. 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)
  5. 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)
  6. 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 source | edit]