PangenomeCOLN315NCTC8325NewmanUSA300_FPR3757JSNZ04-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

FunGene: 08-OCT-2024

⊟Summary

• organism: Staphylococcus aureus JSNZ
• locus tag: JSNZ_000475
• pan locus tag^?: SAUPAN002282000
• symbol: JSNZ_000475
• pan gene symbol^?: pdxR
• synonym:
• product: PLP-dependent aminotransferase family protein

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: JSNZ_000475
• symbol: JSNZ_000475
• product: PLP-dependent aminotransferase family protein
• replicon: chromosome
• strand: -
• coordinates: 504138..505520
• length: 1383
• essential: unknown other strains

⊟Accession numbers

• Gene ID:
• RefSeq:
• BioCyc:
• MicrobesOnline:

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
  61
  121
  181
  241
  301
  361
  421
  481
  541
  601
  661
  721
  781
  841
  901
  961
  1021
  1081
  1141
  1201
  1261
  1321
  1381
  
  TTGAAAAACACTTTATACCATCAACTTTATGAAAAATTAAAAAAACAAATAATTGAAGGT
  CAATTTAAAGAAGGCGATAAATTTTATTCTAAAAGACAATTAAGCAAACATTTATCTATC
  AGCCAAACAACCGTAGAGCATGCATATCAACTTCTATTAGACGAAGGTTACATTTATTCA
  AGACCTCGCTCTGGATATTTTGTGTCCGAAATTGAATCTTTAACAATTTTAAACAATCAA
  CCTATCCCCTCTCTTTTTGATGATGATTCATATAAACCAAAAGCGAGTGATGAAGCTTAT
  GATTATGCTTTTAATTTGGATGAAATAGATACGAAACATTTCCCGATAGAACTTTTCAGA
  AAGTATTCCAAAGATCTTTATGATACAAATCATTTAAATCAATTACGTAGAGGACATTTT
  CAAGGAGAATTACATTTAAGATTTCAACTGGCATTTTATTTATTTACTAATCGTGGTGTA
  ATTTGTGATCCTAATCAAATTATAATTGGCTCATCTACCGAACAATTAGTAAATCAATTA
  GTCGATTTACTTTATACTTCAACATTTATTATCGAAAAACCTAGTTATCCACCAATCAAA
  AATATTTTAGATAAAAAACAAGTTGAATATGAACAAATTGAAGTTGAAGATAATGGAATA
  AACGTAGATGAAGTTATTAAATCACAAAAAAATATAGTATATATAACGCCTTCCCATCAA
  TTTCCAACTGGATATGTGATGGACTTAAAAAAGCGAACTCAATTAATACAATGGGCTCAA
  GAAAAAGAAGAACGATTTATTATAGAAGATGATTATGATTCCGAGTTTAGATATTTCGGC
  AAACCCATTCCAGCAATTCAAGGTCTATATTCAAGAGGAGAAAAAGTGATTTATATCAGT
  ACATTTTCAAAGTCTATTTTTCCTAGCTGTCGAGTTGCATATATGGTGTTACCCTATTCT
  ATAATGAAAAAATATCATTCTCAAAATCACATTGAAGGCAACACTGTACCTGTTCATATG
  CAAAACCTTATTGCAACGTTTATATCTTCCGGTGGTTTTGAAAGGCATTTAAATAAAATG
  AGACGAATTTATCGTAGAAAACTAACCTATATTTTAAAAAGATTGAAACCTTACAAAGAG
  CAGCTTGATATTCAAGGTGCTGAAACGGGTATGCATTTTACAATTACAGTAAAAAATGGA
  TTAACATTACAAGAGTGTCTTGATAGAGCAAACAAAGTAAAGTTAAAATTACAAGTTTAT
  AATTTTGATGATGATCAAGACTATAAGAAAACCCCTAAATTTATATTAGGCTTTGGCGGT
  ATAGACGATGATGCTTTAAAACCGCATGTAGACGCTCTAATAAAATCATTAATTATAAAG
  TAA
  60
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  240
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  420
  480
  540
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  840
  900
  960
  1020
  1080
  1140
  1200
  1260
  1320
  1380
  1383
  

⊟Protein

⊟General

• locus tag: JSNZ_000475
• symbol: JSNZ_000475
• description: PLP-dependent aminotransferase family protein
• length: 460
• theoretical pI: 8.55168
• theoretical MW: 53954.4
• GRAVY: -0.510217

⊟Function

• TIGRFAM:
  enduracididine biosynthesis enzyme MppQ (TIGR04461; EC 2.-.-.-; HMM-score: 87.9)
  and 12 more
  succinyldiaminopimelate transaminase (TIGR03538; EC 2.6.1.17; HMM-score: 33.8)
  Signal transduction Regulatory functions DNA interactions phosphonate utilization transcriptional regulator PhnR (TIGR03337; HMM-score: 32.5)
  Signal transduction Regulatory functions DNA interactions trehalose operon repressor (TIGR02404; HMM-score: 31.9)
  Metabolism Energy metabolism Amino acids and amines histidine utilization repressor (TIGR02018; HMM-score: 29.9)
  Signal transduction Regulatory functions DNA interactions histidine utilization repressor (TIGR02018; HMM-score: 29.9)
  Metabolism Transport and binding proteins Anions phosphonate metabolism transcriptional regulator PhnF (TIGR02325; HMM-score: 24.4)
  Signal transduction Regulatory functions DNA interactions phosphonate metabolism transcriptional regulator PhnF (TIGR02325; HMM-score: 24.4)
  LL-diaminopimelate aminotransferase (TIGR03542; EC 2.6.1.83; HMM-score: 18.1)
  Signal transduction Regulatory functions DNA interactions biotin operon repressor (TIGR00122; HMM-score: 16.6)
  succinyldiaminopimelate transaminase (TIGR03539; EC 2.6.1.17; HMM-score: 16.1)
  beta-methylarginine biosynthesis bifunctional aminotransferase (TIGR04544; EC 2.6.-.-; HMM-score: 15.5)
  glutaredoxin-like protein, YruB-family (TIGR02196; HMM-score: 13.7)
• TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
• PFAM:
  PLP_aminotran (CL0061) Aminotran_1_2; Aminotransferase class I and II (PF00155; HMM-score: 50.9)
  HTH (CL0123) GntR; Bacterial regulatory proteins, gntR family (PF00392; HMM-score: 43.8)
  and 7 more
  HTH_54; ParA helix turn helix domain (PF18607; HMM-score: 22.1)
  HTH_11; HTH domain (PF08279; HMM-score: 18.5)
  HTH_24; Winged helix-turn-helix DNA-binding (PF13412; HMM-score: 15.7)
  HTH_41; Helix-turn-helix domain (PF14502; HMM-score: 15.3)
  RPA_C; Replication protein A C terminal (PF08784; HMM-score: 14.6)
  DnaD_N; DnaD N-terminal domain (PF21984; HMM-score: 14.3)
  NUMOD1; NUMOD1 domain (PF07453; HMM-score: 14)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effector: Pyridoxal-5-phosphate
• genes regulated by PdxR*, TF important in Pyridoxine biosynthesis

  activation

  pdxS > pdxT

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 9.97
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0.01
  • Extracellular Score: 0.02
  • Internal Helices: 0
• DeepLocPro: Cytoplasmic
  • Cytoplasmic Score: 0.9026
  • Cytoplasmic Membrane Score: 0.0593
  • Cell wall & surface Score: 0.0021
  • Extracellular Score: 0.036
• LocateP:
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.00453
  • TAT(Tat/SPI): 0.000382
  • LIPO(Sec/SPII): 0.000587
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq:
• UniProt:

⊟Protein sequence

• MKNTLYHQLYEKLKKQIIEGQFKEGDKFYSKRQLSKHLSISQTTVEHAYQLLLDEGYIYSRPRSGYFVSEIESLTILNNQPIPSLFDDDSYKPKASDEAYDYAFNLDEIDTKHFPIELFRKYSKDLYDTNHLNQLRRGHFQGELHLRFQLAFYLFTNRGVICDPNQIIIGSSTEQLVNQLVDLLYTSTFIIEKPSYPPIKNILDKKQVEYEQIEVEDNGINVDEVIKSQKNIVYITPSHQFPTGYVMDLKKRTQLIQWAQEKEERFIIEDDYDSEFRYFGKPIPAIQGLYSRGEKVIYISTFSKSIFPSCRVAYMVLPYSIMKKYHSQNHIEGNTVPVHMQNLIATFISSGGFERHLNKMRRIYRRKLTYILKRLKPYKEQLDIQGAETGMHFTITVKNGLTLQECLDRANKVKLKLQVYNFDDDQDYKKTPKFILGFGGIDDDALKPHVDALIKSLIIK

⊟Experimental data

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

⊟Expression & Regulation

⊟Operon

⊟Regulation

• regulator:

⊟Transcription pattern

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

⊟Protein synthesis (provided by Aureolib)

• Aureolib: no data available

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature

⊟References

⊟Relevant publications