Detailed information    

experimental Experimentally validated

Overview

Name   comFC   Type   Machinery gene
Locus tag   LCA_RS09740 Genome accession   NC_007576
Coordinates   511525..511953 (+) Length   142 a.a.
NCBI ID   WP_148664867.1    Uniprot ID   -
Organism   Latilactobacillus sakei subsp. sakei 23K     
Function   ssDNA transport into the cell   
DNA binding and uptake

Function

All the late competence (com) operons encoding structural elements of the DNA uptake machinery were highly activated by sigHLsa overexpression.


Genomic Context

Location: 506525..516953
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCA_RS02535 (LCA_0490) - 508103..509191 (+) 1089 WP_041821010.1 glycosyltransferase family 4 protein -
  LCA_RS02540 (LCA_0491) - 509218..509883 (-) 666 WP_011374199.1 YigZ family protein -
  LCA_RS02545 (LCA_0492) comFA 509945..511282 (+) 1338 WP_011374200.1 DEAD/DEAH box helicase Machinery gene
  LCA_RS09740 comFC 511525..511953 (+) 429 WP_148664867.1 ComF family protein Machinery gene
  LCA_RS02555 (LCA_0494) hpf 512080..512625 (+) 546 WP_011374202.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  LCA_RS02560 (LCA_0495) secA 512874..515237 (+) 2364 WP_011374203.1 preprotein translocase subunit SecA -
  LCA_RS02565 (LCA_0496) prfB 515307..516423 (+) 1117 WP_099049013.1 peptide chain release factor 2 -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  sigH comFC positive effect
  sigH comEC positive effect
  sigH comGE positive effect
  sigH recA positive effect
  sigH comGA positive effect
  sigH ssb positive effect
  sigH comEA positive effect
  sigH comFA positive effect
  sigH comGB positive effect
  sigH comGC positive effect
  sigH dprA positive effect
  sigH comGD positive effect
  sigH comGF positive effect
  sigH comC positive effect

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16670.11 Da        Isoelectric Point: 9.8198

>NTDB_id=616 LCA_RS09740 WP_148664867.1 511525..511953(+) (comFC) [Latilactobacillus sakei subsp. sakei 23K]
MQLYFQRYKGQGDYQLRLLFERDIRTRFPVKPNVTYVPIPSDEQHQQERGFNPVQGLFETCFPLTSLLKKRPTEKGQAQK
NRAERLASPQFFELIPQELPYKPQSIIILDDIYTTGRTVWHAQQCLRANYPQATINAITLAR

Nucleotide


Download         Length: 429 bp        

>NTDB_id=616 LCA_RS09740 WP_148664867.1 511525..511953(+) (comFC) [Latilactobacillus sakei subsp. sakei 23K]
ATGCAGTTATATTTTCAACGTTATAAGGGCCAAGGAGACTATCAATTACGGCTGTTATTCGAACGCGACATTCGAACTCG
GTTTCCAGTAAAACCCAATGTAACTTACGTGCCTATTCCATCTGATGAGCAACATCAACAAGAACGGGGCTTTAATCCAG
TCCAAGGCTTATTCGAAACTTGTTTTCCGTTAACATCGCTATTGAAAAAGCGGCCAACAGAGAAGGGCCAAGCACAAAAA
AATCGTGCAGAACGTCTTGCAAGTCCACAATTTTTTGAATTAATACCGCAAGAATTACCGTATAAGCCGCAATCGATAAT
AATCTTGGATGATATTTATACGACGGGCCGAACGGTGTGGCATGCACAACAATGTCTGCGTGCTAATTATCCCCAAGCTA
CAATTAATGCGATTACTTTAGCCAGATAG

Domains


No domain identified.



Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  comFC Lactococcus lactis subsp. cremoris KW2

37.241

100

0.403

Multiple sequence alignment    



References

[1] Solveig Schmid et al. (2012) Alternative sigma factor σH activates competence gene expression in Lactobacillus sakei. BMC Microbiology 12:32. [PMID: 22409597]