Detailed information    

experimental Experimentally validated

Overview

Name   dns   Type   Auxiliary factor
Locus tag   VP_RS12690 Genome accession   NC_004603
Coordinates   2753426..2754121 (+) Length   231 a.a.
NCBI ID   WP_005461720.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   degradation of extracellular DNA   
Defense system

Function

The ΔopaR mutant showed increased expression of Dns, which might degrade the eDNA.


Genomic Context

Location: 2748426..2759121
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS12675 (VP2606) metK 2750446..2751600 (+) 1155 WP_005461723.1 methionine adenosyltransferase -
  VP_RS12680 (VP2607) - 2751945..2752742 (+) 798 WP_005461722.1 DUF2189 domain-containing protein -
  VP_RS12685 (VP2608) - 2752809..2753306 (+) 498 WP_005461721.1 SprT family zinc-dependent metalloprotease -
  VP_RS12690 (VP2609) dns 2753426..2754121 (+) 696 WP_005461720.1 deoxyribonuclease I Auxiliary factor
  VP_RS12695 (VP2610) rsmE 2754246..2754977 (+) 732 WP_005461719.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -
  VP_RS12700 (VP2611) gshB 2754992..2755942 (+) 951 WP_005482451.1 glutathione synthase -
  VP_RS12705 (VP2612) - 2756056..2756619 (+) 564 WP_005461717.1 YqgE/AlgH family protein -
  VP_RS12710 (VP2613) ruvX 2756668..2757093 (+) 426 WP_005461715.1 Holliday junction resolvase RuvX -
  VP_RS12715 (VP2614) pilU 2757118..2758224 (-) 1107 WP_005461714.1 PilT/PilU family type 4a pilus ATPase Machinery gene

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  opaR dns negative effect

Sequence

Protein


Download         Length: 231 a.a.        Molecular weight: 26579.22 Da        Isoelectric Point: 9.6463

>NTDB_id=1297 VP_RS12690 WP_005461720.1 2753426..2754121(+) (dns) [Vibrio parahaemolyticus RIMD 2210633]
MKYLFTLFLFVLSTSAFSAPPSSFSAAKREAVKIYQDHPSSFYCGCDIQWQGKKGVPDLASCGYQVRKQEKRAARIEWEH
VVPAWQFGHQLQCWQSGGRKNCSRNDTAFKLMEADLHNLTPAVGEVNGDRSNFNFSQWNGMDGVSYGRCDMQVNFKQRKV
MPPDRARGSIARTYLYMSKEYGFKLSKQQTQLMSAWNKTYPVDKWECERDKRIAKVQGNHNPFVQEACRAL

Nucleotide


Download         Length: 696 bp        

>NTDB_id=1297 VP_RS12690 WP_005461720.1 2753426..2754121(+) (dns) [Vibrio parahaemolyticus RIMD 2210633]
ATGAAATACTTGTTTACTCTGTTTCTCTTTGTTCTTTCTACTTCCGCTTTTTCTGCCCCTCCTAGCTCATTTTCTGCCGC
CAAACGTGAAGCGGTGAAAATCTATCAAGACCACCCGAGCAGTTTTTACTGTGGTTGTGATATCCAGTGGCAAGGCAAAA
AAGGCGTTCCAGACTTAGCCTCTTGCGGTTACCAAGTTCGCAAACAAGAAAAACGCGCAGCTCGCATTGAATGGGAACAT
GTGGTTCCTGCCTGGCAATTCGGCCACCAGCTCCAGTGTTGGCAAAGCGGTGGGCGCAAAAACTGTTCGCGCAACGACAC
GGCTTTTAAACTCATGGAGGCGGATTTACACAACCTGACCCCAGCGGTTGGTGAGGTGAACGGTGACCGTTCTAACTTCA
ACTTCAGCCAATGGAACGGCATGGATGGTGTCAGCTATGGCCGCTGCGACATGCAAGTGAACTTCAAGCAACGCAAAGTA
ATGCCACCCGACAGAGCTCGCGGCTCGATTGCACGTACTTACCTGTACATGAGCAAGGAGTACGGATTCAAACTCTCCAA
GCAGCAAACTCAGCTAATGAGTGCTTGGAACAAAACCTATCCGGTAGACAAATGGGAATGTGAGCGTGACAAGCGCATCG
CCAAAGTACAAGGTAACCACAACCCGTTTGTTCAAGAGGCTTGCCGCGCACTGTAA

Domains

Predicted by InterproScan.

Endonuclease I (Endonuclease_1)

(32-227)


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
  dns Aliivibrio fischeri ES114

70.815

100

0.714
  dns Vibrio cholerae strain A1552

72.247

98.268

0.71
  ideA Vibrio cholerae O1 str. 2010EL-1786

52.402

100

0.529
  dns Campylobacter jejuni RM1221

42.534

99.103

0.422

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]