PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 26-AUG-2013

⊟Summary

• organism: Staphylococcus aureus N315
• locus tag: SA1301 [new locus tag: SA_RS07360 ]
• pan locus tag^?: SAUPAN003929000
• symbol: ndk
• pan gene symbol^?: ndk
• synonym:
• product: nucleoside diphosphate kinase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SA1301 [new locus tag: SA_RS07360 ]
• symbol: ndk
• product: nucleoside diphosphate kinase
• replicon: chromosome
• strand: -
• coordinates: 1507477..1507926
• length: 450
• essential: no DEG other strains

⊟Accession numbers

• Gene ID: 1124140 NCBI
• RefSeq: NP_374583 NCBI
• BioCyc: see SA_RS07360
• MicrobesOnline: 103609 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
  241
  301
  361
  421
  
  GTGGAACGTACATTTTTAATGATTAAACCAGACGCAGTACAAAGAAATCTAATTGGTGAA
  GTAATTTCAAGAATTGAAAGAAAAGGACTAAAACTTGTCGGTGGTAAATTAATGCAAGTA
  CCAATGGAACTTGCTGAAACACATTATGGTGAACACCAAGGCAAACCGTTTTATAATGAT
  TTAATTTCATTTATTACATCAGCACCAGTGTTCGCAATGGTAGTTGAAGGTGAAGATGCA
  GTTAATGTATCTAGACATATTATTGGCAGCACCAATCCTTCAGAAGCTTCACCAGGATCA
  ATTAGAGGTGATTTAGGTTTAACTGTTGGTAGAAATATCATTCACGGTTCAGATTCATTA
  GAGTCTGCTGAACGTGAAATTAATCTATGGTTTAATGAAAATGAAATTACTAGCTATGCT
  TCACCACGTGATGCATGGTTATATGAATAA
  60
  120
  180
  240
  300
  360
  420
  450
  

⊟Protein

• 3Q83
  PDB
• 3Q86
  PDB
• 3Q89
  PDB
• 3Q8U
  PDB
• 3Q8V
  PDB
• 3Q8Y
  PDB

Protein Data Bank: 3Q83

Protein Data Bank: 3Q86

Protein Data Bank: 3Q89

Protein Data Bank: 3Q8U

Protein Data Bank: 3Q8V

Protein Data Bank: 3Q8Y

⊟General

• locus tag: SA1301 [new locus tag: SA_RS07360 ]
• symbol: Ndk
• description: nucleoside diphosphate kinase
• length: 149
• theoretical pI: 4.82307
• theoretical MW: 16574.6
• GRAVY: -0.248322

⊟Function

• reaction:
  EC 2.7.4.6?  ExPASy
  Nucleoside-diphosphate kinase ATP + nucleoside diphosphate = ADP + nucleoside triphosphate
• TIGRFAM:
• TheSEED  :
  • Nucleoside diphosphate kinase (EC 2.7.4.6)
  Nucleosides and Nucleotides Purines Purine conversions  Nucleoside diphosphate kinase (EC 2.7.4.6)
  and 1 more
  Nucleosides and Nucleotides Pyrimidines pyrimidine conversions  Nucleoside diphosphate kinase (EC 2.7.4.6)
• PFAM:
  no clan defined NDK; Nucleoside diphosphate kinase (PF00334; HMM-score: 192.2)
  and 1 more
  TIM_barrel (CL0036) OMPdecase; Orotidine 5'-phosphate decarboxylase / HUMPS family (PF00215; HMM-score: 11.7)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors: Mg²⁺
• effectors:

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 9.97
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0.01
  • Extracellular Score: 0.02
  • 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): 0.007039
  • TAT(Tat/SPI): 0.002696
  • LIPO(Sec/SPII): 0.000723
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 15927050 NCBI
• RefSeq: NP_374583 NCBI
• UniProt: P99068 UniProt

⊟Protein sequence

• MERTFLMIKPDAVQRNLIGEVISRIERKGLKLVGGKLMQVPMELAETHYGEHQGKPFYNDLISFITSAPVFAMVVEGEDAVNVSRHIIGSTNPSEASPGSIRGDLGLTVGRNIIHGSDSLESAEREINLWFNENEITSYASPRDAWLYE

⊟Experimental data

• 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

⊟Operon

• MicrobesOnline: ndk < gerCC < ubiE < SA1304

⊟Regulation

• regulator:

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: data available for COL

⊟Protein stability

• half-life: no data available

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications

Alexander Scherl, Patrice François, Manuela Bento, Jacques M Deshusses, Yvan Charbonnier, Véronique Converset, Antoine Huyghe, Nadia Walter, Christine Hoogland, Ron D Appel, Jean-Charles Sanchez, Catherine G Zimmermann-Ivol, Garry L Corthals, Denis F Hochstrasser, Jacques Schrenzel
Correlation of proteomic and transcriptomic profiles of Staphylococcus aureus during the post-exponential phase of growth.
J Microbiol Methods: 2005, 60(2);247-57
[PubMed:15590099] [WorldCat.org] [DOI] (P p)