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

FunGene: 08-OCT-2024

⊟Summary

• organism: Staphylococcus aureus JSNZ
• locus tag: JSNZ_000491
• pan locus tag^?: SAUPAN002302000
• symbol: JSNZ_000491
• pan gene symbol^?: sigH
• synonym:
• product: sigma-70 family RNA polymerase sigma factor

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: JSNZ_000491
• symbol: JSNZ_000491
• product: sigma-70 family RNA polymerase sigma factor
• replicon: chromosome
• strand: +
• coordinates: 522333..522902
• length: 570
• 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
  
  TTGAAATATGATTTGACAACGCAAGACAGTACAATCAAACGTAACAATGCAATAAATGAT
  AAAGACTTCGAAAAGTTAGTAATGAATCTACAACCATTAATTATTCGACGCATCAAAACA
  TTTGGATTTAATCATTATGATTTAGAAGACTTATATCAAGAAATACTTATACGGATGTAT
  AGGTCGGTCCAAACATTTGATTTTAGTGGAGAGCAGCCTTTCACAAATTATGTTCAATGT
  TTAATTACGTCTGTAAAGTATGATTATTTGAGAAAATATTTAGCTACAAATAAAAGAATG
  GATAATTTGATTAATGAATATAGAGTTACGTATCCATGTGCAATAAAGCGTTATGATGTT
  CAAAACAATTATTTGAATAAATTAGCAATTAAAGAGTTGATTCGTCAGTTTAAGTATTTG
  AGTGCATTTGAAAAAGATGTCATGTATTTAATGTGTGAACAATATAAGCCGAGAGAAATT
  GCTCAACTGATGCATGTAAAAGAGAAAGTTATTTATAATGCCATACAACGATGTAAAAAT
  AAAATAAAACGTTATTTCAAAATGATTTGA
  60
  120
  180
  240
  300
  360
  420
  480
  540
  570
  

⊟Protein

⊟General

• locus tag: JSNZ_000491
• symbol: JSNZ_000491
• description: sigma-70 family RNA polymerase sigma factor
• length: 189
• theoretical pI: 9.7793
• theoretical MW: 23095.9
• GRAVY: -0.537566

⊟Function

• TIGRFAM:
  RNA polymerase sigma factor, sigma-70 family (TIGR02937; HMM-score: 51)
  and 16 more
  RNA polymerase sigma-70 factor, Bacteroides expansion family 1 (TIGR02985; HMM-score: 29.7)
  Cellular processes Cellular processes Sporulation and germination RNA polymerase sigma-H factor (TIGR02859; HMM-score: 28.4)
  Genetic information processing Transcription Transcription factors RNA polymerase sigma-H factor (TIGR02859; HMM-score: 28.4)
  RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family (TIGR02989; HMM-score: 25.7)
  RNA polymerase sigma-70 factor, TIGR02952 family (TIGR02952; HMM-score: 25.6)
  RNA polymerase sigma-70 factor, sigma-B/F/G subfamily (TIGR02980; HMM-score: 25.2)
  Cellular processes Cellular processes Sporulation and germination RNA polymerase sigma-F factor (TIGR02885; HMM-score: 24.6)
  Genetic information processing Transcription Transcription factors RNA polymerase sigma-F factor (TIGR02885; HMM-score: 24.6)
  RNA polymerase sigma factor RpoE (TIGR02939; HMM-score: 22.3)
  RNA polymerase sigma factor, FliA/WhiG family (TIGR02479; HMM-score: 21.1)
  RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1 (TIGR02984; HMM-score: 20.7)
  RNA polymerase sigma-W factor (TIGR02948; HMM-score: 16.2)
  RNA polymerase sigma-70 factor, sigma-E family (TIGR02983; HMM-score: 16)
  Cellular processes Cellular processes Sporulation and germination RNA polymerase sigma-G factor (TIGR02850; HMM-score: 15.4)
  Genetic information processing Transcription Transcription factors RNA polymerase sigma-G factor (TIGR02850; HMM-score: 15.4)
  RNA polymerase sigma-70 factor, TIGR02954 family (TIGR02954; HMM-score: 13.1)
• TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
• PFAM:
  HTH (CL0123) Sigma70_r2; Sigma-70 region 2 (PF04542; HMM-score: 46.5)
  and 6 more
  Sigma70_r4_2; Sigma-70, region 4 (PF08281; HMM-score: 17.7)
  HTH_23; Homeodomain-like domain (PF13384; HMM-score: 13.7)
  UPF0122; Putative helix-turn-helix protein, YlxM / p13 like (PF04297; HMM-score: 13.5)
  Terminase_5; Putative ATPase subunit of terminase (gpP-like) (PF06056; HMM-score: 13.3)
  GerE; Bacterial regulatory proteins, luxR family (PF00196; HMM-score: 12.5)
  HTH_29; Winged helix-turn helix (PF13551; HMM-score: 12.3)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors:
• effectors:
• genes regulated by SigH*, sigma factor controlling competence and phage integrase genes: in N315, NCTC8325

⊟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: 0.8119
  • Cytoplasmic Membrane Score: 0.0882
  • Cell wall & surface Score: 0.0019
  • Extracellular Score: 0.098
• LocateP:
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.001609
  • TAT(Tat/SPI): 0.000211
  • LIPO(Sec/SPII): 0.000357
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI:
• RefSeq:
• UniProt:

⊟Protein sequence

• MKYDLTTQDSTIKRNNAINDKDFEKLVMNLQPLIIRRIKTFGFNHYDLEDLYQEILIRMYRSVQTFDFSGEQPFTNYVQCLITSVKYDYLRKYLATNKRMDNLINEYRVTYPCAIKRYDVQNNYLNKLAIKELIRQFKYLSAFEKDVMYLMCEQYKPREIAQLMHVKEKVIYNAIQRCKNKIKRYFKMI

⊟Experimental data

• experimentally validated:
• protein localization:
• 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 are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications

Kazuya Morikawa, Yumiko Inose, Hideyuki Okamura, Atsushi Maruyama, Hideo Hayashi, Kunio Takeyasu, Toshiko Ohta
A new staphylococcal sigma factor in the conserved gene cassette: functional significance and implication for the evolutionary processes.
Genes Cells: 2003, 8(8);699-712
[PubMed:12875655] [WorldCat.org] [DOI] (P p)Liang Tao, Xiaoqian Wu, Baolin Sun
Alternative sigma factor sigmaH modulates prophage integration and excision in Staphylococcus aureus.
PLoS Pathog: 2010, 6(5);e1000888
[PubMed:20485515] [WorldCat.org] [DOI] (I e)Kazuya Morikawa, Aya J Takemura, Yumiko Inose, Melody Tsai, Le Thuy Nguyen Thi, Toshiko Ohta, Tarek Msadek
Expression of a cryptic secondary sigma factor gene unveils natural competence for DNA transformation in Staphylococcus aureus.
PLoS Pathog: 2012, 8(11);e1003003
[PubMed:23133387] [WorldCat.org] [DOI] (I p)