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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01632
  • pan locus tag?: SAUPAN004112000
  • symbol: SAOUHSC_01632
  • pan gene symbol?: gcvPB
  • synonym:
  • product: glycine dehydrogenase subunit 2

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_01632
  • symbol: SAOUHSC_01632
  • product: glycine dehydrogenase subunit 2
  • replicon: chromosome
  • strand: -
  • coordinates: 1551986..1553458
  • length: 1473
  • 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
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    ATGACTAGTAAATCAAGTCCATTAATTTTTGAAAGATCTCGTGAAGGCAGATATGCATAT
    TCATTACCAAAAAGTGATATTAAAACAAATTCTGTTGAGTCATTGTTAGATGATAAATTT
    ATTCGTAAAAACAAAGCGGAGTTTCCTGAAGTTGCTGAACTAGACTTAGTACGTCATTAT
    ACTGAACTTTCAAATAAAAATTTCGGTGTAGACAACGGATTTTATCCATTGGGTTCATGT
    ACGATGAAGTATAACCCTAAAATTAATGAAAAGGTTGCTAGAATACCAGGATTTAGTGAA
    TCACATCCATTACAAGATGAAGATCAAGTTCAAGGTTCATTAGAAATTATTTATAGTTTG
    CAAGAAGAATTAAAAGAAATTACTGGTATGGATGAGGTGACATTACAACCAGCTGCTGGC
    GCACATGGTGAATGGACTGCATTGATGATATTTAAAGCTTACCATGAGAATAATGGTGAA
    GGTCATCGTGATGAAGTCATTGTGCCAGATTCTGCGCATGGTACGAATCCAGCCTCAGCT
    TCATTTGCAGGATTTAAATCAGTTACTGTAAAATCAAACGAACGTGGCGAAGTTGATATT
    GATGACTTGAAACGTGTTGTAAATGAAAATACAGCAGCTATTATGTTAACTAATCCAAAC
    ACTTTAGGTATTTTCGAAAAAAATATTATGGAAATCCGTGAAATCGTCCATAATGCTGGT
    GGTCTATTATATTATGATGGTGCGAATTTAAACGCTATTATGGACAAAGTTCGCCCAGGA
    GATATGGGATTTGATGCTGTTCATTTAAACTTGCATAAAACATTTACTGGTCCACATGGT
    GGTGGCGGTCCTGGTTCAGGTCCAGTCGGTGTAGTAAAAGAACTAGCAAGTTACTTACCA
    AAGCCAATGGTTATTAAAGATGGCGACAAATTTAAATATGATAATGACATTAAAAATTCT
    ATCGGACGTGTAAAACCATTTTATGGTAACTTTGGTATTTACTTAAGAGCTTATACGTAT
    ATTCGAACTATGGGAGCAACTGGACTTAAAGAGGTTTCTGAAGCAGCGGTTCTTAATGCG
    AATTATATTAAAGCACGTTTATCTAAACACTTTGAAATACCTTATAAACAATATTGTAAA
    CACGAGTTTGTGTTAAGTGGTGTGCGTCAAAAAGAATTTGGTGTACGTACTTTAGACATG
    GCTAAGCGATTATTAGATTTCGGTGTACATCCACCAACAATATACTTCCCATTAAATGTT
    GAAGAAGGTATGATGATTGAACCGACTGAGACAGAGTCTAAAGAAACACTTGATTATTTT
    ATCGATACATTAATTAGTATTGCTGAAGAAGCTAAAAATGATCCTGATAAAGTGCTAGAA
    GCACCACATACAACTGTGATTGATCGATTAGACGAAGCTACAGCTGCTCGTAAACCAATA
    TTAAAGTTTGAAAATCTTAAACAGGAAAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1473

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_01632
  • symbol: SAOUHSC_01632
  • description: glycine dehydrogenase subunit 2
  • length: 490
  • theoretical pI: 5.78226
  • theoretical MW: 54781.8
  • GRAVY: -0.448571

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: 404.2)
    cysteine desulfurase, NifS family (TIGR03403; EC 2.8.1.7; HMM-score: 28.8)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOthertyrosine decarboxylase MnfA (TIGR03812; EC 4.1.1.25; HMM-score: 28.3)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOthercysteine desulfurase, SufS family (TIGR01979; HMM-score: 25.4)
    Unknown functionEnzymes of unknown specificitycysteine desulfurase family protein (TIGR01977; HMM-score: 24.6)
    Unknown functionEnzymes of unknown specificitycysteine desulfurase family protein (TIGR01976; HMM-score: 22.9)
    Cellular processesCellular processesBiosynthesis of natural productscapreomycidine synthase (TIGR03947; HMM-score: 19.7)
    Genetic information processingDNA metabolismRestriction/modificationcysteine desulfurase DndA (TIGR03235; EC 2.8.1.7; HMM-score: 19.5)
    cysteine desulfurase NifS (TIGR03402; EC 2.8.1.7; HMM-score: 18.7)
    tyrosine/nicotianamine family aminotransferase (TIGR01265; HMM-score: 15.1)
    dTDP-4-dehydro-6-deoxyglucose aminotransferase (TIGR04427; EC 2.-.-.-; HMM-score: 14.5)
    MetabolismEnergy metabolismAmino acids and aminestyrosine aminotransferase (TIGR01264; EC 2.6.1.5; HMM-score: 13.3)
    Genetic information processingProtein synthesistRNA and rRNA base modificationcysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 12.4)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersOthercysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 12.4)
    MetabolismAmino acid biosynthesisHistidine familyhistidinol-phosphate transaminase (TIGR01141; EC 2.6.1.9; HMM-score: 11.7)
  • TheSEED:  
    Amino Acids and DerivativesAlanine, serine, and glycineGlycine and Serine Utilization Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2) 
    Alanine, serine, and glycineGlycine cleavage system Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2) 
    Cofactors, Vitamins, Prosthetic Groups, PigmentsLipoic acidLipoic acid metabolism Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2) 
  • PFAM:
    PLP_aminotran (CL0061) GDC-P; Glycine cleavage system P-protein (PF02347; HMM-score: 39.3)
    Aminotran_5; Aminotransferase class-V (PF00266; HMM-score: 34)
    Beta_elim_lyase; Beta-eliminating lyase (PF01212; HMM-score: 31.6)
    DegT_DnrJ_EryC1; DegT/DnrJ/EryC1/StrS aminotransferase family (PF01041; HMM-score: 22.6)
    Pyridoxal_deC; Pyridoxal-dependent decarboxylase conserved domain (PF00282; HMM-score: 11.8)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors: pyridoxal 5'-phosphate
  • 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: 0.125
    • Ymax_pos: 22
    • Cmax: 0.107
    • Cmax_pos: 37
    • Smax: 0.208
    • Smax_pos: 16
    • Smean: 0.152
    • D: 0.136
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MTSKSSPLIFERSREGRYAYSLPKSDIKTNSVESLLDDKFIRKNKAEFPEVAELDLVRHYTELSNKNFGVDNGFYPLGSCTMKYNPKINEKVARIPGFSESHPLQDEDQVQGSLEIIYSLQEELKEITGMDEVTLQPAAGAHGEWTALMIFKAYHENNGEGHRDEVIVPDSAHGTNPASASFAGFKSVTVKSNERGEVDIDDLKRVVNENTAAIMLTNPNTLGIFEKNIMEIREIVHNAGGLLYYDGANLNAIMDKVRPGDMGFDAVHLNLHKTFTGPHGGGGPGSGPVGVVKELASYLPKPMVIKDGDKFKYDNDIKNSIGRVKPFYGNFGIYLRAYTYIRTMGATGLKEVSEAAVLNANYIKARLSKHFEIPYKQYCKHEFVLSGVRQKEFGVRTLDMAKRLLDFGVHPPTIYFPLNVEEGMMIEPTETESKETLDYFIDTLISIAEEAKNDPDKVLEAPHTTVIDRLDEATAARKPILKFENLKQEK

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]