Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   Q4437_RS05175 Genome accession   NZ_CP130651
Coordinates   1114488..1115492 (+) Length   334 a.a.
NCBI ID   WP_005457270.1    Uniprot ID   Q87QU7
Organism   Vibrio parahaemolyticus strain HZ     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1109488..1120492
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Q4437_RS05155 (Q4437_05155) aspS 1109772..1111550 (+) 1779 WP_005483110.1 aspartate--tRNA ligase -
  Q4437_RS05160 (Q4437_05160) ruvC 1111679..1112200 (+) 522 WP_005457261.1 crossover junction endodeoxyribonuclease RuvC -
  Q4437_RS05165 (Q4437_05165) - 1112322..1113773 (+) 1452 WP_005483104.1 methyl-accepting chemotaxis protein -
  Q4437_RS05170 (Q4437_05170) ruvA 1113852..1114466 (+) 615 WP_005486097.1 Holliday junction branch migration protein RuvA -
  Q4437_RS05175 (Q4437_05175) ruvB 1114488..1115492 (+) 1005 WP_005457270.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  Q4437_RS05180 (Q4437_05180) cydA 1115953..1117539 (+) 1587 WP_005457265.1 cytochrome ubiquinol oxidase subunit I -
  Q4437_RS05185 (Q4437_05185) cydB 1117557..1118693 (+) 1137 WP_005483614.1 cytochrome d ubiquinol oxidase subunit II -
  Q4437_RS05190 (Q4437_05190) cydX 1118706..1118813 (+) 108 WP_000270284.1 cytochrome bd-I oxidase subunit CydX -
  Q4437_RS05195 (Q4437_05195) ybgE 1118806..1119108 (+) 303 WP_005495828.1 cyd operon protein YbgE -
  Q4437_RS05200 (Q4437_05200) ybgC 1119281..1119700 (+) 420 WP_005483618.1 tol-pal system-associated acyl-CoA thioesterase -
  Q4437_RS05205 (Q4437_05205) tolQ 1119690..1120388 (+) 699 WP_005483599.1 protein TolQ -

Sequence

Protein


Download         Length: 334 a.a.        Molecular weight: 37226.63 Da        Isoelectric Point: 4.7025

>NTDB_id=786368 Q4437_RS05175 WP_005457270.1 1114488..1115492(+) (ruvB) [Vibrio parahaemolyticus strain HZ]
MIEADRLIAPENPAFRDEDVIDRAIRPKKLADYQGQDHVRDQMEIFIKAAQLRSEALDHLLIFGPPGLGKTTLANIVANE
MEVNIRTTSGPVLEKAGDLAALLTNLEENDVLFIDEIHRLSPMVEEVLYPAMEDYQLDIMIGEGPAARSIKIDLPPFTLI
GATTRAGSLTSPLRDRFGITQRLEYYKVQDLQNIVQRSADCLGLSMEPEGALEVARRARGTPRIANRLLRRVRDYAEVKG
NGHICADVADKALNMLDVDAQGFDYMDRKLLLAIMEKFGGGPVGLDNMAAAIGEEKDTIEDVLEPYLIQQGYLQRTPRGR
IATDRAYLHFGIEK

Nucleotide


Download         Length: 1005 bp        

>NTDB_id=786368 Q4437_RS05175 WP_005457270.1 1114488..1115492(+) (ruvB) [Vibrio parahaemolyticus strain HZ]
ATGATTGAAGCCGATCGTTTAATCGCTCCTGAAAATCCAGCGTTTCGTGATGAAGATGTTATTGACCGTGCTATTCGCCC
TAAAAAGTTGGCGGATTACCAAGGTCAGGATCATGTCCGTGATCAGATGGAGATTTTCATCAAAGCGGCACAATTGCGTA
GTGAGGCGTTAGACCACCTACTTATTTTTGGCCCTCCAGGTTTGGGTAAAACGACGTTGGCAAACATTGTTGCTAACGAA
ATGGAAGTGAACATCCGTACTACTTCTGGACCTGTTCTCGAAAAAGCAGGCGATTTGGCCGCGTTGTTGACCAATCTTGA
GGAAAACGACGTGCTTTTCATTGATGAGATCCATCGTCTTAGCCCTATGGTCGAAGAGGTGCTGTATCCGGCAATGGAAG
ATTACCAATTGGACATCATGATTGGTGAAGGCCCGGCCGCACGTTCTATCAAAATTGATTTGCCACCATTCACATTGATT
GGTGCAACGACGCGTGCGGGGTCTTTGACTTCTCCGCTGCGTGACCGTTTTGGTATTACTCAGCGTCTTGAGTACTACAA
AGTGCAAGATCTACAGAACATTGTTCAACGCAGTGCAGATTGCCTAGGGTTGTCGATGGAGCCAGAAGGCGCGTTAGAAG
TTGCTCGACGAGCTCGTGGTACGCCTCGTATTGCGAACCGTCTATTGCGCCGTGTCCGTGACTATGCAGAAGTGAAGGGC
AACGGACATATTTGTGCCGATGTTGCTGACAAAGCGCTTAATATGTTGGATGTCGATGCTCAGGGCTTCGATTACATGGA
CCGCAAGCTTCTTCTCGCTATCATGGAGAAATTTGGTGGTGGTCCAGTTGGACTCGACAATATGGCTGCCGCTATTGGTG
AAGAGAAAGACACCATTGAAGATGTGCTAGAACCATATTTGATTCAGCAAGGCTATTTACAACGCACTCCCCGAGGAAGA
ATCGCCACAGATCGTGCATATCTTCATTTCGGAATTGAAAAATAA

Domains

Predicted by InterProScan.

RuvB AAA lid domain (AAA_lid_4)

(186-259)

RuvB C-terminal winged helix domain (WHD_RuvB)

(261-330)

Holliday junction DNA helicase RuvB P-loop domain (RuvB_N)

(25-183)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q87QU7

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
  ruvB Bacillus subtilis subsp. subtilis str. 168

60.486

98.503

0.596
  ruvB Streptococcus pneumoniae TIGR4

58.824

96.707

0.569
  ruvB Streptococcus pneumoniae R6

58.824

96.707

0.569
  ruvB Streptococcus pneumoniae D39

58.824

96.707

0.569
  ruvB Synechocystis sp. PCC 6803

55.987

92.515

0.518
  ruvB Helicobacter pylori 26695

54.276

91.018

0.494