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

FunGene: 08-OCT-2024

⊟Summary

• organism: Staphylococcus aureus JSNZ
• locus tag: JSNZ_001384
• pan locus tag^?: SAUPAN003813000
• symbol: lysA
• pan gene symbol^?: lysA
• synonym:
• product: diaminopimelate decarboxylase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: JSNZ_001384
• symbol: lysA
• product: diaminopimelate decarboxylase
• replicon: chromosome
• strand: +
• coordinates: 1399618..1400883
• length: 1266
• 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
  
  ATGACTGTTAAATATAATCAAAATGGCGAATTAACAATGGATGGTATTAGTTTAAAAACG
  ATTGCGCAAAGCTTTGGTACACCTACCATTGTTTATGATGAACTACAAATTAGAGAACAG
  ATGCGCCGTTACCATCGCGCATTTAAAGATAGTGGATTAAAATACAATATTTCATACGCC
  TCAAAGGCATTTACTTGCATTCAAATGGTCAAACTTGTAGCTGAGGAAGATTTACAGTTA
  GATGTTGTTTCTGAAGGTGAATTATATACAGCTTTAGAAGCAGGTTTTGAACCGAGTCGC
  ATCCATTTCCATGGTAACAATAAAACGAAACATGAAATTAGGTATGCTTTAGAAAATAAT
  ATCGGTTATTTTGTTATAGATTCATTAGAAGAAATTGAATTAATAGACCGCTATACTAAT
  GATACGGTTCAAGTTGTATTACGAGTTAATCCAGGTGTTGAAGCACATACACACGAATTT
  ATTCAAACTGGGCAAGAAGATAGTAAGTTTGGATTATCAATTCAATATGGCTTAGCTAAA
  AAAGCAATTGACAAAGTCCAACAATCTAAACACTTAAAATTAAAAGGTGTACATTGTCAT
  ATTGGTTCACAGATTGAAGGTACAGAAGCATTTATTGAAACTGCTAAAATTGTTTTACGT
  TGGCTTAAAGAGCAAGGCATTCAAGTTGAATTATTAAACCTTGGTGGTGGCTTTGGTATT
  AAATATGTTGAAGGTGACGAAAGTTTCCCTATCGAAAGTGGTATTAAAGATATTACAGAC
  GCAATAAAATCCGAAATTAAAGTTCTAGGTATAGATGCACCAGAAATAGGTATTGAACCG
  GGACGATCAATTGTAGGTGAAGCTGGCGTTACTTTATATGAAGTTGGAACCATTAAAGAA
  ATTCCAGAGATTAATAAATATGTTTCAATCGATGGCGGTATGAGTGATCATATCAGAACT
  GCACTTTATGACGCAAAGTATCAAGCATTGCTTGTTAATAGAAATGAAGAAGCAGATGAC
  AGTGTAACTATAGCTGGAAAATTATGTGAGTCTGGTGATATCATTATTAAAGACGCTAAA
  TTACCTTCATCAGTCAAACGTGGAGACTATCTTGCTATATTATCAACTGGTGCATATCAT
  TACTCTATGGCATCCAATTACAATCAAATGCAAAAGCCTTCTGCGTTTTTCTTAAAAGAT
  GGCAAAGCACGTGAAGTTATAAAGCGACAATCGTTAAGACAACTCATTATTAATGATACA
  AAATAA
  60
  120
  180
  240
  300
  360
  420
  480
  540
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  660
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  840
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  960
  1020
  1080
  1140
  1200
  1260
  1266
  

⊟Protein

⊟General

• locus tag: JSNZ_001384
• symbol: LysA
• description: diaminopimelate decarboxylase
• length: 421
• theoretical pI: 5.65794
• theoretical MW: 47036.2
• GRAVY: -0.295724

⊟Function

• reaction:
  EC 4.1.1.20?  ExPASy
  Diaminopimelate decarboxylase Meso-2,6-diaminoheptanedioate = L-lysine + CO₂
• TIGRFAM:
  Metabolism Amino acid biosynthesis Aspartate family diaminopimelate decarboxylase (TIGR01048; EC 4.1.1.20; HMM-score: 459.8)
  and 4 more
  pyridoxal-dependent decarboxylase, exosortase A system-associated (TIGR03099; HMM-score: 183.4)
  Metabolism Central intermediary metabolism Polyamine biosynthesis arginine decarboxylase (TIGR01273; EC 4.1.1.19; HMM-score: 57.2)
  Metabolism Central intermediary metabolism Polyamine biosynthesis carboxynorspermidine decarboxylase (TIGR01047; HMM-score: 35.7)
  Unknown function Enzymes of unknown specificity pyridoxal phosphate enzyme, YggS family (TIGR00044; HMM-score: 12.3)
• TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
• PFAM:
  TIM_barrel (CL0036) Orn_Arg_deC_N; Pyridoxal-dependent decarboxylase, pyridoxal binding domain (PF02784; HMM-score: 223.2)
  and 2 more
  Hybrid (CL0105) Orn_DAP_Arg_deC; Pyridoxal-dependent decarboxylase, C-terminal sheet domain (PF00278; HMM-score: 69.7)
  TIM_barrel (CL0036) Ala_racemase_N; Alanine racemase, N-terminal domain (PF01168; HMM-score: 19.4)

⊟Structure, modifications & cofactors

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

⊟Localization

• 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: 0.9898
  • Cytoplasmic Membrane Score: 0.0062
  • Cell wall & surface Score: 0.0004
  • Extracellular Score: 0.0036
• LocateP:
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.007004
  • TAT(Tat/SPI): 0.000502
  • LIPO(Sec/SPII): 0.001808
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq:
• UniProt:

⊟Protein sequence

• MTVKYNQNGELTMDGISLKTIAQSFGTPTIVYDELQIREQMRRYHRAFKDSGLKYNISYASKAFTCIQMVKLVAEEDLQLDVVSEGELYTALEAGFEPSRIHFHGNNKTKHEIRYALENNIGYFVIDSLEEIELIDRYTNDTVQVVLRVNPGVEAHTHEFIQTGQEDSKFGLSIQYGLAKKAIDKVQQSKHLKLKGVHCHIGSQIEGTEAFIETAKIVLRWLKEQGIQVELLNLGGGFGIKYVEGDESFPIESGIKDITDAIKSEIKVLGIDAPEIGIEPGRSIVGEAGVTLYEVGTIKEIPEINKYVSIDGGMSDHIRTALYDAKYQALLVNRNEEADDSVTIAGKLCESGDIIIKDAKLPSSVKRGDYLAILSTGAYHYSMASNYNQMQKPSAFFLKDGKAREVIKRQSLRQLIINDTK

⊟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

⊟Regulation

• regulator: CodY (repression) regulon

  CodY

  (TF)

  important in Amino acid metabolism; transcription unit predicted or transferred from N315 and NCTC 8325 in Wolfgramm et al. (https://doi.org/10.1101/2025.09.03.674026)

⊟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