Detailed information    

experimental Experimentally validated

Overview

Name   cytR   Type   Regulator
Locus tag   VP_RS01235 Genome accession   NC_004603
Coordinates   262927..263973 (-) Length   348 a.a.
NCBI ID   WP_254894148.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   promote competence gene expression   
Competence regulation

Function

CytR controls the release of GlcNAc6 from insoluble chitin and conversion of GlcNAc6 into smaller GlcNAc residues inside the periplasm by modulating the expression of endochitinase and periplasmic chitinases. In addition, CytR was also responsible for GlcNAc6-mediated upregulation of competence-related genes such as pilA, pilB, comEA, and qstR. The ΔcytR mutant showed 194.7-, 75.4-, 29-, 48.2-, and 16.1-fold downregulation in pilA, pilB, comEA, comEC, and qstR, respectively.


Genomic Context

Location: 257927..268973
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS01205 (VP0246) zapB 258096..258338 (+) 243 WP_005481417.1 cell division protein ZapB -
  VP_RS01210 (VP0247) rraA 258443..258955 (-) 513 WP_005457192.1 ribonuclease E activity regulator RraA -
  VP_RS01215 (VP0248) - 259032..259949 (-) 918 WP_005457195.1 1,4-dihydroxy-2-naphthoate polyprenyltransferase -
  VP_RS01220 (VP0249) hslU 260134..261465 (-) 1332 WP_005457198.1 HslU--HslV peptidase ATPase subunit -
  VP_RS01225 (VP0250) hslV 261489..262040 (-) 552 WP_005455873.1 ATP-dependent protease subunit HslV -
  VP_RS01230 (VP0251) ftsN 262205..262750 (-) 546 WP_005481405.1 cell division protein FtsN -
  VP_RS01235 (VP0252) cytR 262927..263973 (-) 1047 WP_254894148.1 DNA-binding transcriptional regulator CytR Regulator
  VP_RS01240 (VP0253) priA 264267..266471 (-) 2205 WP_005481427.1 primosomal protein N' -
  VP_RS01245 (VP0255) rpmE 266766..266987 (+) 222 WP_005457203.1 50S ribosomal protein L31 -
  VP_RS01250 (VP0256) rpsJ 267445..267756 (+) 312 WP_004410492.1 30S ribosomal protein S10 -
  VP_RS01255 (VP0257) rplC 267771..268400 (+) 630 WP_005456132.1 50S ribosomal protein L3 -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  cytR pilA positive effect
  tfoX pilA positive effect
  tfoX qstR positive effect
  tfoX comEC positive effect
  tfoX pilB positive effect
  tfoX comEA positive effect
  cytR qstR positive effect
  cytR comEC positive effect
  cytR pilB positive effect
  cytR comEA positive effect

Sequence

Protein


Download         Length: 348 a.a.        Molecular weight: 38445.17 Da        Isoelectric Point: 6.7430

>NTDB_id=1290 VP_RS01235 WP_254894148.1 262927..263973(-) (cytR) [Vibrio parahaemolyticus RIMD 2210633]
MTSSWQKFERLNTMATMKDVAQLAGVSTATVSRALMNPEKVSSSTRKRVEDAVLEAGYSPNSLARNLRRNESKTIVTIVP
DICDPYFSEIIRGIEDAAMEHGYLVLLGDSGQQKKRESSFVNLVFTKQADGMLLLGTDLPFDVSKPEQKNLPPMVMACEF
APELELPTVHIDNLTSAFEAVNYLTQLGHKRIAQISGPDTAVLCQFRQQGYQQALRRAGISKDPQYSVITEFSFDGGAKA
VRKLLELPEPPTAIFCHCDTMAIGAIQEAKRLGLRVPQDLSVVGFDDINFAQYCDPPLTTISQPRYEIGRQAMLMMLELL
KGHDVHSGSRLLETKLVVRGSAAPPQRA

Nucleotide


Download         Length: 1047 bp        

>NTDB_id=1290 VP_RS01235 WP_254894148.1 262927..263973(-) (cytR) [Vibrio parahaemolyticus RIMD 2210633]
ATAACGTCATCTTGGCAAAAATTTGAGAGGTTAAACACTATGGCGACAATGAAGGATGTTGCCCAGCTTGCGGGAGTGTC
GACAGCTACGGTATCTCGAGCATTAATGAATCCAGAAAAAGTCTCTTCTTCAACAAGAAAAAGAGTCGAAGATGCCGTCC
TTGAAGCGGGCTATTCTCCAAATTCATTAGCGCGTAATCTACGTAGAAACGAATCAAAAACGATTGTTACCATCGTTCCT
GACATCTGTGATCCTTACTTTTCTGAAATCATTCGTGGTATCGAAGACGCCGCTATGGAACATGGCTACCTCGTACTGCT
CGGTGACAGCGGCCAGCAGAAAAAGCGTGAAAGCTCGTTTGTGAATCTAGTGTTCACCAAACAAGCCGATGGCATGTTAC
TGCTTGGTACCGACCTGCCATTTGATGTCAGCAAGCCAGAACAGAAAAACCTGCCACCAATGGTCATGGCTTGTGAGTTT
GCGCCAGAGCTAGAATTACCAACCGTGCACATTGACAACCTAACGTCTGCTTTTGAAGCGGTCAATTACCTAACTCAACT
TGGCCATAAACGCATAGCACAAATTTCAGGGCCAGACACAGCGGTATTGTGCCAGTTCCGCCAGCAAGGTTATCAACAAG
CCTTGCGTCGCGCGGGGATCAGTAAAGACCCACAATACAGTGTTATCACTGAGTTTTCTTTTGACGGCGGCGCGAAAGCT
GTACGTAAGTTGCTAGAACTTCCAGAGCCACCAACTGCGATTTTCTGCCACTGCGACACCATGGCAATCGGCGCAATCCA
AGAAGCCAAACGACTCGGTCTGCGCGTTCCGCAAGATTTGTCAGTGGTTGGTTTCGATGATATCAACTTTGCTCAATACT
GCGATCCACCGTTAACGACCATTTCTCAACCTCGTTATGAAATTGGCCGCCAAGCGATGCTTATGATGCTTGAACTACTT
AAAGGCCATGACGTTCATTCAGGTTCACGCTTACTAGAAACTAAGCTTGTTGTCCGTGGTAGCGCAGCGCCACCGCAACG
CGCCTAA

Domains

Predicted by InterproScan.

Periplasmic binding protein-like domain (Peripla_BP_3)

(181-341)

Bacterial regulatory proteins, lacI family (LacI)

(16-61)


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
  cytR Vibrio cholerae C6706

90.719

99.701

0.904

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]