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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • 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 | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • 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 | 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
    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 | edit source]

⊟General[edit | edit source]

  • 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 | edit source]

  • 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:
    Metabolism Energy metabolism Amino acids and amines glycine dehydrogenase (TIGR00461; EC 1.4.4.2; HMM-score: 404.2)
    and 14 more
    cysteine desulfurase, NifS family (TIGR03403; EC 2.8.1.7; HMM-score: 28.8)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other tyrosine decarboxylase MnfA (TIGR03812; EC 4.1.1.25; HMM-score: 28.3)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other cysteine desulfurase, SufS family (TIGR01979; HMM-score: 25.4)
    Unknown function Enzymes of unknown specificity cysteine desulfurase family protein (TIGR01977; HMM-score: 24.6)
    Unknown function Enzymes of unknown specificity cysteine desulfurase family protein (TIGR01976; HMM-score: 22.9)
    Cellular processes Cellular processes Biosynthesis of natural products capreomycidine synthase (TIGR03947; HMM-score: 19.7)
    Genetic information processing DNA metabolism Restriction/modification cysteine 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)
    Metabolism Energy metabolism Amino acids and amines tyrosine aminotransferase (TIGR01264; EC 2.6.1.5; HMM-score: 13.3)
    Genetic information processing Protein synthesis tRNA and rRNA base modification cysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 12.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other cysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 12.4)
    Metabolism Amino acid biosynthesis Histidine family histidinol-phosphate transaminase (TIGR01141; EC 2.6.1.9; HMM-score: 11.7)
  • TheSEED  :
    • Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2)
    Amino Acids and Derivatives Alanine, serine, and glycine Glycine and Serine Utilization  Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2)
    and 2 more
    Amino Acids and Derivatives Alanine, serine, and glycine Glycine cleavage system  Glycine dehydrogenase [decarboxylating] (glycine cleavage system P2 protein) (EC 1.4.4.2)
    Cofactors, Vitamins, Prosthetic Groups, Pigments Lipoic acid Lipoic 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)
    and 2 more
    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 & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors: pyridoxal 5'-phosphate
  • effectors:

⊟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): 0.006978
    • TAT(Tat/SPI): 0.000582
    • LIPO(Sec/SPII): 0.001717
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTSKSSPLIFERSREGRYAYSLPKSDIKTNSVESLLDDKFIRKNKAEFPEVAELDLVRHYTELSNKNFGVDNGFYPLGSCTMKYNPKINEKVARIPGFSESHPLQDEDQVQGSLEIIYSLQEELKEITGMDEVTLQPAAGAHGEWTALMIFKAYHENNGEGHRDEVIVPDSAHGTNPASASFAGFKSVTVKSNERGEVDIDDLKRVVNENTAAIMLTNPNTLGIFEKNIMEIREIVHNAGGLLYYDGANLNAIMDKVRPGDMGFDAVHLNLHKTFTGPHGGGGPGSGPVGVVKELASYLPKPMVIKDGDKFKYDNDIKNSIGRVKPFYGNFGIYLRAYTYIRTMGATGLKEVSEAAVLNANYIKARLSKHFEIPYKQYCKHEFVLSGVRQKEFGVRTLDMAKRLLDFGVHPPTIYFPLNVEEGMMIEPTETESKETLDYFIDTLISIAEEAKNDPDKVLEAPHTTVIDRLDEATAARKPILKFENLKQEK

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [1] [2]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: Gly-box (transcription antitermination) regulon
    Gly-box(5' cis-acting region)important in Glycine metabolism; transcription unit transferred from N315 data RegPrecise 

⊟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. ↑ 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);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  3. ↑ 3.0 3.1 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 | edit source]

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