Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   R1T29_RS05440 Genome accession   NZ_CP136903
Coordinates   1164474..1165478 (+) Length   334 a.a.
NCBI ID   WP_005495833.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain X1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1159474..1170478
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R1T29_RS05420 (R1T29_05420) aspS 1159758..1161536 (+) 1779 WP_005483110.1 aspartate--tRNA ligase -
  R1T29_RS05425 (R1T29_05425) ruvC 1161665..1162186 (+) 522 WP_005457261.1 crossover junction endodeoxyribonuclease RuvC -
  R1T29_RS05430 (R1T29_05430) - 1162308..1163759 (+) 1452 WP_138938444.1 methyl-accepting chemotaxis protein -
  R1T29_RS05435 (R1T29_05435) ruvA 1163838..1164452 (+) 615 WP_005486097.1 Holliday junction branch migration protein RuvA -
  R1T29_RS05440 (R1T29_05440) ruvB 1164474..1165478 (+) 1005 WP_005495833.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  R1T29_RS05445 (R1T29_05445) cydA 1165939..1167525 (+) 1587 WP_021485394.1 cytochrome ubiquinol oxidase subunit I -
  R1T29_RS05450 (R1T29_05450) cydB 1167543..1168679 (+) 1137 WP_005483614.1 cytochrome d ubiquinol oxidase subunit II -
  R1T29_RS05455 (R1T29_05455) cydX 1168692..1168799 (+) 108 WP_000270284.1 cytochrome bd-I oxidase subunit CydX -
  R1T29_RS05460 (R1T29_05460) ybgE 1168792..1169094 (+) 303 WP_029844672.1 cyd operon protein YbgE -
  R1T29_RS05465 (R1T29_05465) ybgC 1169267..1169686 (+) 420 WP_317676141.1 tol-pal system-associated acyl-CoA thioesterase -
  R1T29_RS05470 (R1T29_05470) tolQ 1169676..1170374 (+) 699 WP_005485405.1 protein TolQ -

Sequence

Protein


Download         Length: 334 a.a.        Molecular weight: 37235.64 Da        Isoelectric Point: 4.7611

>NTDB_id=816137 R1T29_RS05440 WP_005495833.1 1164474..1165478(+) (ruvB) [Vibrio parahaemolyticus strain X1]
MIEADRLIAPENPAFRDEDVIDRAIRPKKLADYQGQDHVRDQMEIFIKAAQLRSEALDHLLIFGPPGLGKTTLANIVANE
MEVNIRTTSGPVLEKAGDLAALLTNLEENDVLFIDEIHRLSPMVEEVLYPAMEDYQLDIMIGEGPAARSIKIDLPPFTLI
GATTRAGSLTSPLRDRFGITQRLEYYKVHDLQNIVQRSADCLGLSMEPEGALEVARRARGTPRIANRLLRRVRDYAEVKG
NGHICADVADKALNMLDVDAQGFDYMDRKLLLAIMEKFGGGPVGLDNMAAAIGEEKDTIEDVLEPYLIQQGYLQRTPRGR
IATDRAYLHFGIEK

Nucleotide


Download         Length: 1005 bp        

>NTDB_id=816137 R1T29_RS05440 WP_005495833.1 1164474..1165478(+) (ruvB) [Vibrio parahaemolyticus strain X1]
ATGATTGAAGCCGATCGTTTAATCGCTCCTGAAAATCCAGCGTTTCGTGATGAAGATGTTATTGACCGTGCTATTCGCCC
TAAAAAGTTGGCGGATTACCAAGGTCAGGATCATGTCCGTGATCAGATGGAGATTTTCATCAAAGCGGCACAATTGCGTA
GTGAGGCGTTAGACCACCTACTTATTTTTGGCCCTCCAGGTTTGGGTAAAACGACGTTGGCAAACATTGTTGCTAACGAG
ATGGAAGTGAACATCCGTACTACTTCTGGACCTGTTCTCGAAAAAGCAGGCGATTTGGCCGCGTTGTTGACCAACCTTGA
GGAAAACGACGTGCTTTTCATTGATGAGATCCATCGTCTTAGCCCTATGGTCGAAGAGGTGCTGTATCCGGCAATGGAAG
ATTACCAATTGGACATCATGATTGGTGAAGGCCCTGCCGCACGTTCTATCAAAATTGATTTGCCACCATTCACATTGATT
GGTGCAACGACGCGTGCGGGGTCTTTGACTTCTCCGCTGCGTGACCGTTTTGGTATTACTCAGCGTCTTGAGTACTACAA
AGTACACGATCTACAGAACATTGTTCAACGCAGTGCAGATTGCCTAGGGTTGTCGATGGAGCCAGAAGGCGCGTTAGAAG
TTGCTCGACGAGCTCGTGGTACGCCTCGTATTGCGAACCGTCTATTGCGCCGTGTACGTGACTATGCAGAAGTGAAGGGT
AACGGACATATTTGTGCCGATGTTGCTGACAAAGCGCTTAATATGTTGGATGTGGATGCTCAGGGCTTCGATTACATGGA
CCGCAAGCTTCTTCTCGCTATCATGGAAAAATTTGGTGGTGGTCCAGTTGGACTCGACAATATGGCTGCCGCTATTGGTG
AAGAAAAAGACACCATTGAAGATGTGCTAGAACCATATTTGATTCAGCAAGGCTATTTACAACGCACTCCCCGAGGAAGA
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

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