Detailed information    

experimental Experimentally validated

Overview

Name   comEA   Type   Machinery gene
Locus tag   LCA_RS05340 Genome accession   NC_007576
Coordinates   1066659..1067366 (-) Length   235 a.a.
NCBI ID   WP_231952379.1    Uniprot ID   -
Organism   Latilactobacillus sakei subsp. sakei 23K     
Function   dsDNA binding to the cell surface   
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: 1061659..1072366
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCA_RS05315 (LCA_1066) rpsO 1061953..1062222 (-) 270 WP_011374766.1 30S ribosomal protein S15 -
  LCA_RS05320 (LCA_1067) rpsT 1062501..1062755 (+) 255 WP_011374767.1 30S ribosomal protein S20 -
  LCA_RS05325 (LCA_1068) holA 1062824..1063852 (-) 1029 WP_011374768.1 DNA polymerase III subunit delta -
  LCA_RS05330 (LCA_1069) comEC 1063849..1066116 (-) 2268 WP_011374769.1 DNA internalization-related competence protein ComEC/Rec2 Machinery gene
  LCA_RS05335 (LCA_1070) - 1066113..1066601 (-) 489 WP_011374770.1 ComE operon protein 2 -
  LCA_RS05340 (LCA_1071) comEA 1066659..1067366 (-) 708 WP_231952379.1 helix-hairpin-helix domain-containing protein Machinery gene
  LCA_RS05345 (LCA_1072) - 1067438..1068484 (-) 1047 WP_011374772.1 SepM family pheromone-processing serine protease -
  LCA_RS05350 (LCA_1073) coaD 1068486..1068983 (-) 498 WP_011374773.1 pantetheine-phosphate adenylyltransferase -
  LCA_RS05355 (LCA_1074) rsmD 1068996..1069550 (-) 555 WP_011374774.1 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD -
  LCA_RS05360 (LCA_1075) - 1069555..1069845 (-) 291 WP_011374775.1 YlbG family protein -
  LCA_RS05365 (LCA_1076) - 1069869..1070957 (-) 1089 WP_011374776.1 CAP-associated domain-containing protein -
  LCA_RS05370 (LCA_1077) - 1070968..1072155 (-) 1188 WP_011374777.1 FtsW/RodA/SpoVE family cell cycle protein -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  sigH comEA positive effect
  sigH comEC positive effect
  sigH comFC positive effect
  sigH comGE positive effect
  sigH recA positive effect
  sigH comGA positive effect
  sigH ssb 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: 235 a.a.        Molecular weight: 26146.73 Da        Isoelectric Point: 9.7682

>NTDB_id=613 LCA_RS05340 WP_231952379.1 1066659..1067366(-) (comEA) [Latilactobacillus sakei subsp. sakei 23K]
MMWQDYWQRYRRFWWVPCLVLLGIIAGGFYWHQSQQKQKVTQNEQLLATSASKTKPATKKTHQAATKKKGGFVDIKGAVV
YPGIYPITVSETRLFEVLKNAGGPTDAADTKRLNLAQKLTDQLIIYIPKKGEVVTDQELIQAPQQIATTSERTQEQASTG
TSANASSTSDTAKIDLNQADSTQLQTLNGIGPKKAEQIIAYRDEQGKFKQIEDLQKVGGIGPKTFEQLQSQICVN

Nucleotide


Download         Length: 708 bp        

>NTDB_id=613 LCA_RS05340 WP_231952379.1 1066659..1067366(-) (comEA) [Latilactobacillus sakei subsp. sakei 23K]
ATGATGTGGCAAGATTATTGGCAGCGATATCGGCGTTTTTGGTGGGTGCCTTGCTTAGTGCTATTGGGGATCATCGCGGG
TGGCTTTTATTGGCATCAATCGCAACAAAAACAAAAAGTAACGCAAAATGAGCAACTGCTAGCAACCAGTGCGTCTAAAA
CAAAACCCGCTACTAAGAAGACACACCAAGCGGCAACCAAGAAAAAAGGCGGTTTTGTCGATATAAAAGGCGCGGTGGTC
TACCCGGGAATTTATCCGATCACAGTCTCTGAAACGCGCTTATTTGAGGTGCTCAAAAATGCAGGTGGTCCGACTGATGC
GGCTGATACCAAGCGGCTTAATTTAGCTCAAAAGTTAACCGATCAACTGATTATTTATATTCCGAAAAAAGGAGAGGTGG
TTACTGATCAAGAACTCATTCAAGCGCCACAACAAATCGCAACGACCAGTGAGCGTACGCAAGAACAGGCATCAACTGGG
ACAAGTGCGAATGCATCGAGCACGAGTGACACTGCTAAAATCGATTTGAATCAGGCTGATAGTACGCAGCTTCAGACCCT
CAATGGCATTGGCCCCAAGAAAGCTGAACAAATAATTGCTTATCGTGATGAACAAGGAAAATTTAAACAGATTGAAGATC
TACAAAAAGTCGGCGGGATTGGTCCGAAGACGTTTGAACAATTGCAATCACAAATTTGTGTGAATTAG

Domains

Predicted by InterproScan.

SLBB domain (SLBB)

(73-124)

Helix-hairpin-helix motif (HHH_3)

(172-233)


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
  comEA Lactococcus lactis subsp. cremoris KW2

38.095

100

0.404
  comEA/celA/cilE Streptococcus pneumoniae TIGR4

34.335

100

0.37
  comEA/celA/cilE Streptococcus mitis NCTC 12261

34.335

100

0.37
  comEA/celA/cilE Streptococcus pneumoniae D39

33.476

100

0.361
  comEA/celA/cilE Streptococcus pneumoniae R6

33.476

100

0.361
  comEA/celA/cilE Streptococcus pneumoniae Rx1

33.476

100

0.361

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]