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

NCBI: 10-JUN-2013

⊟Summary

• organism: Staphylococcus aureus USA300_FPR3757
• locus tag: SAUSA300_0562 [new locus tag: SAUSA300_RS03010 ]
• pan locus tag^?: SAUPAN002357000
• symbol: thiD
• pan gene symbol^?: pdxK
• synonym:
• product: phosphomethylpyrimidine kinase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SAUSA300_0562 [new locus tag: SAUSA300_RS03010 ]
• symbol: thiD
• product: phosphomethylpyrimidine kinase
• replicon: chromosome
• strand: -
• coordinates: 637282..638112
• length: 831
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 3915302 NCBI
• RefSeq: YP_493265 NCBI
• BioCyc: see SAUSA300_RS03010
• MicrobesOnline: 1292077 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

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  ATGGCTTTAAAGAAAGTTTTAACAATTGCCGGTTCTGACACAAGTGCTGGCGCAGGTATG
  CAAGCAGATTTGAAAACGTTCCAAGAATTAGATACGTATGGCATGGTCGCTTTAACTGCC
  ATCGTTACTATGGATAAAGATACATGGTCACACGATGTTACACCATTACCAATGGATGTA
  TTTGAAAAACAACTTGAAACGGCTTTATCAATCGGACCTGATGCTATTAAAACAGGTATG
  TTAGGTACTGAGGAGATAATCAAACGTGCTGGAGAAGTATATGAGGCATCTAATGCACAA
  TATTTTGTAGTAGATCCTGTCATGGTTTGTAAAGGCGAAGATGAAGTGCTTAATCCTGGA
  AATACTGAGGCGATGATTAAATATTTACTACCTAAAGCAACGGTAGTGACACCAAACTTA
  TTTGAAGCGGGTCAATTATCAGGATTAGGTAAATTAAATTCAATTGAAGATATGAAAAAG
  GCTGCAACAATTATCTTTGATAAAGGCGCACAGCATGTCATCATTAAAGGTGGCAAAGCT
  TTAGATCAAGATAAATCGTATGACTTATACTATGATGGTCAAACATTTTATCAACTAACA
  ACAGACATGTTCCAACAAAGTTATAACCATGGTGCTGGTTGTACATTTGCTGCGGCAACA
  ACTGCATATTTAGCTAACGGTAAGTCACCGAAAGAAGCTGTGATTAGCGCGAAAGCTTTC
  GTCGCTTCTGCTATTAAAAACGGTTGGAAAATGAATGATTTTGTTGGTCCTGTGGATCAC
  GGTGCATACAACCGTATTGAACATATCGATGTTGAAGTAACAGAGGTTTAA
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⊟Protein

⊟General

• locus tag: SAUSA300_0562 [new locus tag: SAUSA300_RS03010 ]
• symbol: ThiD
• description: phosphomethylpyrimidine kinase
• length: 276
• theoretical pI: 4.61494
• theoretical MW: 29856.8
• GRAVY: -0.105435

⊟Function

• reaction:
  EC 2.7.4.7?  ExPASy
  Phosphooxymethylpyrimidine kinase ATP + 4-amino-2-methyl-5-(phosphooxymethyl)pyrimidine = ADP + 4-amino-2-methyl-5-(diphosphooxymethyl)pyrimidine
• TIGRFAM:
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase (TIGR00097; EC 2.7.1.49,2.7.4.7; HMM-score: 235.7)
  and 7 more
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Pyridoxine pyridoxal kinase (TIGR00687; EC 2.7.1.35; HMM-score: 54.9)
  Metabolism Energy metabolism Sugars ribokinase (TIGR02152; EC 2.7.1.15; HMM-score: 38.4)
  hexose kinase, 1-phosphofructokinase family (TIGR03168; EC 2.7.1.-; HMM-score: 27.2)
  1-phosphofructokinase (TIGR03828; EC 2.7.1.56; HMM-score: 24.1)
  Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides bifunctional protein RfaE, domain I (TIGR02198; EC 2.7.1.-; HMM-score: 20.5)
  Metabolism Energy metabolism Sugars 5-dehydro-2-deoxygluconokinase (TIGR04382; EC 2.7.1.92; HMM-score: 17.6)
  Metabolism Energy metabolism Biosynthesis and degradation of polysaccharides tagatose-6-phosphate kinase (TIGR01231; EC 2.7.1.144; HMM-score: 13.4)
• TheSEED  :
  • Novel pyridoxal kinase, ThiD family (EC 2.7.1.35)
• PFAM:
  Ribokinase (CL0118) Phos_pyr_kin; Phosphomethylpyrimidine kinase (PF08543; HMM-score: 260.5)
  and 1 more
  PfkB; pfkB family carbohydrate kinase (PF00294; HMM-score: 39.4)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effectors:

⊟Localization

• PSORTb: unknown (no significant prediction)
  • Cytoplasmic Score: 2.5
  • Cytoplasmic Membrane Score: 2.5
  • Cellwall Score: 2.5
  • Extracellular Score: 2.5
  • 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): 0.031077
  • TAT(Tat/SPI): 0.001203
  • LIPO(Sec/SPII): 0.007461
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 87161331 NCBI
• RefSeq: YP_493265 NCBI
• UniProt: A0A0H2XGZ0 UniProt

⊟Protein sequence

• MALKKVLTIAGSDTSAGAGMQADLKTFQELDTYGMVALTAIVTMDKDTWSHDVTPLPMDVFEKQLETALSIGPDAIKTGMLGTEEIIKRAGEVYEASNAQYFVVDPVMVCKGEDEVLNPGNTEAMIKYLLPKATVVTPNLFEAGQLSGLGKLNSIEDMKKAATIIFDKGAQHVIIKGGKALDQDKSYDLYYDGQTFYQLTTDMFQQSYNHGAGCTFAAATTAYLANGKSPKEAVISAKAFVASAIKNGWKMNDFVGPVDHGAYNRIEHIDVEVTEV

⊟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: no polycistronic organisation predicted

⊟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