From AureoWiki
Revision as of 17:22, 10 March 2016 by AureoSysAdmin (talk | contribs) (Text replacement - "* <aureodatabase>protein Genbank</aureodatabase> " to "")
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to navigation Jump to search

NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1439 [new locus tag: NWMN_RS08120 ]
  • pan locus tag?: SAUPAN004112000
  • symbol: gcvPB
  • 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: NWMN_1439 [new locus tag: NWMN_RS08120 ]
  • symbol: gcvPB
  • product: glycine dehydrogenase subunit 2
  • replicon: chromosome
  • strand: -
  • coordinates: 1608785..1610257
  • length: 1473
  • 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
    1381
    1441
    ATGACTAGTAAATCAAGTCCATTAATTTTTGAAAGATCTCGTGAAGGCAGATATGCATAT
    TCATTACCAAAAAGTGATATTAAAACAAATTCTGTTGAGTCATTGTTAGATGATAAATTT
    ATTCGTAAAAACAAAGCGGAGTTTCCTGAAGTTGCTGAACTAGACTTAGTACGTCATTAT
    ACTGAACTTTCAAATAAAAATTTCGGTGTAGACAACGGATTTTATCCATTGGGTTCATGT
    ACGATGAAGTATAACCCTAAAATTAATGAAAAGGTTGCTAGAATACCAGGATTTAGTGAA
    TCACATCCATTACAAGATGAAGATCAAGTTCAAGGTTCATTAGAAATTATTTATAGTTTG
    CAAGAAGAATTAAAAGAAATTACTGGTATGGATGAGGTGACATTACAACCAGCTGCTGGC
    GCACATGGTGAATGGACTGCATTGATGATATTTAAAGCTTACCATGAGAATAATGGTGAA
    GGTCATCGTGATGAAGTCATTGTGCCAGATTCTGCGCATGGTACGAATCCAGCCTCAGCT
    TCATTTGCAGGATTTAAATCAGTTACTGTAAAATCAAACGAACGTGGCGAAGTTAATATT
    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: NWMN_1439 [new locus tag: NWMN_RS08120 ]
  • symbol: GcvPB
  • description: glycine dehydrogenase subunit 2
  • length: 490
  • theoretical pI: 5.91809
  • theoretical MW: 54780.8
  • 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: 401.6)
    and 13 more
    cysteine desulfurase, NifS family (TIGR03403; EC 2.8.1.7; HMM-score: 29)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other tyrosine decarboxylase MnfA (TIGR03812; EC 4.1.1.25; HMM-score: 26.5)
    Unknown function Enzymes of unknown specificity cysteine desulfurase family protein (TIGR01977; HMM-score: 24.3)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other cysteine desulfurase, SufS family (TIGR01979; HMM-score: 24.2)
    Unknown function Enzymes of unknown specificity cysteine desulfurase family protein (TIGR01976; HMM-score: 22.6)
    Genetic information processing DNA metabolism Restriction/modification cysteine desulfurase DndA (TIGR03235; EC 2.8.1.7; HMM-score: 19.3)
    Cellular processes Cellular processes Biosynthesis of natural products capreomycidine synthase (TIGR03947; HMM-score: 17.9)
    cysteine desulfurase NifS (TIGR03402; EC 2.8.1.7; HMM-score: 17.6)
    tyrosine/nicotianamine family aminotransferase (TIGR01265; HMM-score: 13.5)
    Genetic information processing Protein synthesis tRNA and rRNA base modification cysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 11.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other cysteine desulfurase IscS (TIGR02006; EC 2.8.1.7; HMM-score: 11.6)
    Metabolism Amino acid biosynthesis Histidine family histidinol-phosphate transaminase (TIGR01141; EC 2.6.1.9; HMM-score: 11.1)
    Metabolism Energy metabolism Amino acids and amines tyrosine aminotransferase (TIGR01264; EC 2.6.1.5; HMM-score: 10.5)
  • ⊞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) GcvP2_C; Glycine dehydrogenase, C-terminal domain (PF21478; HMM-score: 99.9)
    and 6 more
    GDC-P; Glycine cleavage system P-protein (PF02347; HMM-score: 38.3)
    Aminotran_5; Aminotransferase class-V (PF00266; HMM-score: 32.5)
    Beta_elim_lyase; Beta-eliminating lyase (PF01212; HMM-score: 30.4)
    DegT_DnrJ_EryC1; DegT/DnrJ/EryC1/StrS aminotransferase family (PF01041; HMM-score: 20.7)
    Pyridoxal_deC; Pyridoxal-dependent decarboxylase conserved domain (PF00282; HMM-score: 12.2)
    Aminotran_1_2; Aminotransferase class I and II (PF00155; HMM-score: 11.9)

⊟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
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.8018
    • Cytoplasmic Membrane Score: 0.0003
    • Cell wall & surface Score: 0
    • Extracellular Score: 0.1979
  • ⊞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]

  • MTSKSSPLIFERSREGRYAYSLPKSDIKTNSVESLLDDKFIRKNKAEFPEVAELDLVRHYTELSNKNFGVDNGFYPLGSCTMKYNPKINEKVARIPGFSESHPLQDEDQVQGSLEIIYSLQEELKEITGMDEVTLQPAAGAHGEWTALMIFKAYHENNGEGHRDEVIVPDSAHGTNPASASFAGFKSVTVKSNERGEVNIDDLKRVVNENTAAIMLTNPNTLGIFEKNIMEIREIVHNAGGLLYYDGANLNAIMDKVRPGDMGFDAVHLNLHKTFTGPHGGGGPGSGPVGVVKELASYLPKPMVIKDGDKFKYDNDIKNSIGRVKPFYGNFGIYLRAYTYIRTMGATGLKEVSEAAVLNANYIKARLSKHFEIPYKQYCKHEFVLSGVRQKEFGVRTLDMAKRLLDFGVHPPTIYFPLNVEEGMMIEPTETESKETLDYFIDTLISIAEEAKNDPDKVLEAPHTTVIDRLDEATAARKPILKFENLKQEK

⊟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]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • ⊞regulator: Gly-box (transcription antitermination) regulon

⊟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]

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=NWMN_1439&oldid=64174"