Detailed information    

experimental Experimentally validated

Overview

Name   opaR   Type   Regulator
Locus tag   VP_RS12200 Genome accession   NC_004603
Coordinates   2653215..2653829 (+) Length   204 a.a.
NCBI ID   WP_005479697.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   regulation of Dns   
Competence regulation

Function

The quorum sensing regulator OpaR affects the natural transformation through its regulation of extracellular nuclease Dns. The ΔopaR mutant showed increased expression of Dns, which might degrade the eDNA. As a consequence, the transformation efficiency was decreased and eDNA-dependent growth was hugely enhanced.


Genomic Context

Location: 2648215..2658829
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS12180 (VP2511) - 2648499..2649416 (-) 918 WP_005462584.1 ABC transporter ATP-binding protein -
  VP_RS12185 (VP2513) - 2649669..2651339 (-) 1671 WP_005479694.1 SulP family inorganic anion transporter -
  VP_RS12190 (VP2514) can 2651623..2652291 (+) 669 WP_005462578.1 carbonate dehydratase -
  VP_RS12195 (VP2515) hpt 2652366..2652896 (-) 531 WP_005479701.1 hypoxanthine phosphoribosyltransferase -
  VP_RS12200 (VP2516) opaR 2653215..2653829 (+) 615 WP_005479697.1 transcriptional regulator OpaR Regulator
  VP_RS12205 (VP2517) lpdA 2653957..2655384 (-) 1428 WP_005479684.1 dihydrolipoyl dehydrogenase -
  VP_RS12210 (VP2518) aceF 2655653..2657536 (-) 1884 WP_005462571.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  opaR dns negative effect

Sequence

Protein


Download         Length: 204 a.a.        Molecular weight: 23634.94 Da        Isoelectric Point: 6.0781

>NTDB_id=1291 VP_RS12200 WP_005479697.1 2653215..2653829(+) (opaR) [Vibrio parahaemolyticus RIMD 2210633]
MDSIAKRPRTRLSPLKRKQQLMEIALEVFARRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDEVLNHVVRQFSNFLS
DNIDLDIHARENIANITNAMIELVSQDCHWLKVWFEWSASTRDEVWPLFVSTNRTNQLLVQNMFIKAIERGEVCDQHDSE
HLANLFHGICYSLFVQANRFKGEAELKELVSAYLDMLCIYNREH

Nucleotide


Download         Length: 615 bp        

>NTDB_id=1291 VP_RS12200 WP_005479697.1 2653215..2653829(+) (opaR) [Vibrio parahaemolyticus RIMD 2210633]
ATGGACTCAATTGCAAAGAGACCTAGAACTAGGCTTTCTCCTCTTAAACGTAAGCAACAACTCATGGAAATCGCGTTAGA
AGTATTTGCACGCCGTGGTATTGGCCGTGGTGGTCACGCAGATATTGCTGAAATTGCGCAAGTGTCTGTTGCAACCGTTT
TTAACTACTTCCCAACTCGCGAAGATTTGGTTGATGAAGTTCTCAACCATGTTGTCCGTCAGTTCTCGAATTTCCTTTCG
GACAATATCGACCTAGACATACACGCTCGTGAAAACATCGCAAACATCACCAATGCGATGATCGAGCTTGTAAGCCAAGA
TTGTCACTGGCTGAAAGTTTGGTTCGAGTGGAGCGCATCAACTCGTGATGAAGTTTGGCCTCTATTTGTGTCTACCAACC
GCACTAACCAATTATTGGTTCAAAACATGTTCATTAAAGCGATTGAACGCGGTGAAGTGTGTGATCAACACGATTCAGAA
CACTTGGCAAACCTATTCCACGGTATTTGTTACTCGCTGTTCGTACAAGCAAACCGCTTCAAAGGTGAAGCCGAGTTGAA
AGAGCTCGTGAGCGCTTACCTAGATATGCTTTGCATCTACAATCGCGAACACTAA

Domains

Predicted by InterproScan.

Bacterial regulatory proteins, tetR family (TetR_N)

(22-67)


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
  hapR Vibrio cholerae C6706

72.222

97.537

0.704
  hapR Vibrio cholerae strain A1552

72.222

97.537

0.704

Multiple sequence alignment    



References

[1] Anusuya Debnath et al. (2022) Regulators of natural competence in Vibrio parahaemolyticus. Brazilian Journal of Microbiology : [publication of The Brazilian Society For Microbiology] 53(3):1491-1499. [PMID: 35761009]