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NCBI: 06-JUL-2013

Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1440 [new locus tag: NWMN_RS08125 ]
  • pan locus tag?: SAUPAN004113000
  • symbol: gcvPA
  • pan gene symbol?: gcvPA
  • synonym:
  • product: glycine dehydrogenase subunit 1

Genome View[edit | edit source]

Gene[edit | edit source]

General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_1440 [new locus tag: NWMN_RS08125 ]
  • symbol: gcvPA
  • product: glycine dehydrogenase subunit 1
  • replicon: chromosome
  • strand: -
  • coordinates: 1610250..1611605
  • length: 1356
  • 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
    1261
    1321
    GTGTGCATTGTGAGTCATCGTTATATACCTTTAACTGAAAAAGACAAGCAAGAAATGTTA
    CAAACAATTGGTGCAAAATCTATAGGAGAATTATTCGGTGATGTACCAAGTGACATTTTA
    TTAAATAGAGATTTAAATATTGCTGAAGGCGAAGCGGAAACAACGTTACTTAGAAGATTA
    AATCGCATTGCAAGCAAGAATATCACTAAAGAAACGCATACATCATTTTTGGGTGCTGGT
    GTTTATGATCATTACGCGCCATCAGTTGTGGATGCTATGATTTCAAGATCAGAATTTTAC
    ACAGCATATACGCCATATCAACCGGAAATTTCTCAAGGTGAATTACAAGCCATTTTTGAG
    TTCCAAACTTTAATTTGTGAATTAACAGATATGGATGTAGCAAATTCTTCTATGTATGAT
    GGGATGACTAGCTTTGCTGAAGCATGTATCTTAGCATTTAGTCAAACAAAGAAAAATAAA
    ATTGTAGTCTCAAAAGGTTTACATTATCAAGCATTACAAGTACTTCATACTTATGCTAAG
    ACGCGTAAGGAATTCGAAGTAGTGGAAATCGATTTAGATGGCACTGTTACAGATTTGAAA
    AAATTAGAAGCAGCAGTGGATGATGAAACAGCAGCTGTTGCAGTACAATATCCAAACTTT
    TACGGTTCAATTGAAGATCTTGAAAAGATTCATAGCTTTATTGAAGATAAAAAAGCATTA
    TTTATCGTATATGCAAATCCATTAGCATTGGGATTACTTACACCTCCAGGTTCATTTGGT
    GCAGATATTGTTGTAGGTGATACTCAGCCATTCGGAATTCCTGCTCAATTCGGTGGGCCA
    CATTGTGGATATTTTGCAACGACGAAAAAGTTAATGCGTAAAGTGCCAGGTAGATTAGTC
    GGTCAAACACAAGATGATGAAGGTAATCGTGGCTTTGTATTAACATTACAAGCACGTGAA
    CAACATATTCGACGCGATAAAGCGACATCTAATATTTGTTCTAACCAAGCATTAAATGCT
    TTAGCGTCATCAATTGCAATGTCAGCACTTGGTAAACAAGGTATCTATGATATTGCAGTT
    CAAAATATAGAACATGCTAACTATGCTAAACAACAATTTATTAAAAAAGGTTTTGAAGTA
    TTAGATGGTACATCTTTCAATGAGTTTGTAGTCAAATTTGACAAACCAATTCAACAAGTT
    AACGAGGAATTAGTGAAGTACAATATTATCGGTGGTTTTGATTTAGGTGTTGTTTCAGAC
    GACTTTAAAAATCACATGTTAATAGCTGTAACTGAATTAAGAACAAAAGATGAAATCGAT
    ACATTTGTAGAAAAGGCTGGTGAGTTAAATGACTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1356

Protein[edit | edit source]

General[edit | edit source]

  • locus tag: NWMN_1440 [new locus tag: NWMN_RS08125 ]
  • symbol: GcvPA
  • description: glycine dehydrogenase subunit 1
  • length: 451
  • theoretical pI: 4.83131
  • theoretical MW: 50031.5
  • GRAVY: -0.175166

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: 316.7)
    and 8 more
    cysteine desulfurase NifS (TIGR03402; EC 2.8.1.7; HMM-score: 27.2)
    Genetic information processing Protein synthesis tRNA and rRNA base modification cysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 25.2)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other cysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 25.2)
    Unknown function Enzymes of unknown specificity cysteine desulfurase family protein (TIGR01977; HMM-score: 25)
    Genetic information processing DNA metabolism Restriction/modification cysteine desulfurase DndA (TIGR03235; EC 2.8.1.7; HMM-score: 19.9)
    Metabolism Energy metabolism Amino acids and amines tyrosine aminotransferase (TIGR01264; EC 2.6.1.5; HMM-score: 14.6)
    tyrosine/nicotianamine family aminotransferase (TIGR01265; HMM-score: 12)
    cysteine desulfurase, NifS family (TIGR03403; EC 2.8.1.7; HMM-score: 11.9)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    PLP_aminotran (CL0061) GDC-P; Glycine cleavage system P-protein (PF02347; HMM-score: 506.5)
    and 1 more
    Aminotran_5; Aminotransferase class-V (PF00266; HMM-score: 22.8)

Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • 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): 0.002569
    • TAT(Tat/SPI): 0.000514
    • LIPO(Sec/SPII): 0.000482
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit | edit source]

Protein sequence[edit | edit source]

  • MCIVSHRYIPLTEKDKQEMLQTIGAKSIGELFGDVPSDILLNRDLNIAEGEAETTLLRRLNRIASKNITKETHTSFLGAGVYDHYAPSVVDAMISRSEFYTAYTPYQPEISQGELQAIFEFQTLICELTDMDVANSSMYDGMTSFAEACILAFSQTKKNKIVVSKGLHYQALQVLHTYAKTRKEFEVVEIDLDGTVTDLKKLEAAVDDETAAVAVQYPNFYGSIEDLEKIHSFIEDKKALFIVYANPLALGLLTPPGSFGADIVVGDTQPFGIPAQFGGPHCGYFATTKKLMRKVPGRLVGQTQDDEGNRGFVLTLQAREQHIRRDKATSNICSNQALNALASSIAMSALGKQGIYDIAVQNIEHANYAKQQFIKKGFEVLDGTSFNEFVVKFDKPIQQVNEELVKYNIIGGFDLGVVSDDFKNHMLIAVTELRTKDEIDTFVEKAGELND

Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:

Expression & Regulation[edit | edit source]

Regulation[edit | edit source]

  • regulator: Gly-box (transcription antitermination) regulon
    Gly-box(RNA)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]

Relevant publications[edit | edit source]