Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   R3J25_RS05885 Genome accession   NZ_CP136969
Coordinates   1279884..1280915 (+) Length   343 a.a.
NCBI ID   WP_004085423.1    Uniprot ID   B0U2E3
Organism   Xylella fastidiosa subsp. multiplex strain XYL1752/17     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1274884..1285915
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R3J25_RS05860 (R3J25_05850) - 1275166..1275699 (+) 534 WP_228762585.1 DUF2726 domain-containing protein -
  R3J25_RS05865 (R3J25_05855) - 1275829..1276563 (+) 735 WP_004085427.1 YebC/PmpR family DNA-binding transcriptional regulator -
  R3J25_RS05870 (R3J25_05860) ruvC 1276673..1277194 (+) 522 WP_027700721.1 crossover junction endodeoxyribonuclease RuvC -
  R3J25_RS05875 (R3J25_05865) ruvA 1277280..1277864 (+) 585 WP_004085425.1 Holliday junction branch migration protein RuvA -
  R3J25_RS05880 (R3J25_05870) - 1277919..1279823 (+) 1905 WP_004085424.1 potassium transporter Kup -
  R3J25_RS05885 (R3J25_05875) ruvB 1279884..1280915 (+) 1032 WP_004085423.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  R3J25_RS05890 (R3J25_05880) ybgC 1280933..1281358 (+) 426 WP_004085422.1 tol-pal system-associated acyl-CoA thioesterase -
  R3J25_RS05895 (R3J25_05885) tolQ 1281382..1282155 (+) 774 WP_004085421.1 protein TolQ -
  R3J25_RS05900 (R3J25_05890) tolR 1282198..1282626 (+) 429 WP_038211206.1 protein TolR -
  R3J25_RS05905 (R3J25_05895) tolA 1282616..1283656 (+) 1041 WP_004085419.1 cell envelope integrity protein TolA -
  R3J25_RS05910 (R3J25_05900) tolB 1283998..1285317 (+) 1320 WP_012337828.1 Tol-Pal system beta propeller repeat protein TolB -

Sequence

Protein


Download         Length: 343 a.a.        Molecular weight: 38061.65 Da        Isoelectric Point: 4.8838

>NTDB_id=816766 R3J25_RS05885 WP_004085423.1 1279884..1280915(+) (ruvB) [Xylella fastidiosa subsp. multiplex strain XYL1752/17]
MDRIIDTAATREDEAIEVSIRPKRLADYLGQQPVREQMDIYIQATKARAEALDHVLIFGPPGLGKTTLSHVIAYELGVKL
RVTSGPVIEKAGDLAALLTNLQPYDVLFIDEIHRLSPVVEEVLYPAMEDFQIDIMIGEGPAARSIKIDLPPFTLIGATTR
TGLLTAPLRDRFGIVQRLEFYSPEDLARIVRRSAGILNIDCTTEGAAEIAQRARGTPRIANRLLRRVRDYAEVKAGGQIT
IEVAQAAMQMLKVDQGGFDELDRRLLHTIVEYFDGGPVGIESLAASLSEERGTLEDVVEPYLIQQGFLVRTARGRMATDK
AYQHLALQPRERVSAFTDPEDLF

Nucleotide


Download         Length: 1032 bp        

>NTDB_id=816766 R3J25_RS05885 WP_004085423.1 1279884..1280915(+) (ruvB) [Xylella fastidiosa subsp. multiplex strain XYL1752/17]
ATGGATCGCATCATCGACACCGCAGCCACCCGTGAGGATGAAGCGATTGAGGTCAGTATTCGTCCCAAGCGTTTGGCTGA
TTATCTCGGTCAACAACCTGTACGTGAGCAGATGGATATCTACATCCAAGCCACTAAGGCGCGTGCTGAGGCACTGGATC
ACGTACTCATTTTTGGTCCACCTGGATTGGGCAAGACCACCTTGAGCCACGTCATTGCTTACGAACTCGGGGTCAAGCTA
CGTGTGACTTCTGGTCCAGTGATCGAGAAAGCAGGAGATCTGGCGGCACTACTTACCAATCTACAGCCTTACGATGTGCT
GTTTATTGATGAGATTCATCGGCTATCACCAGTAGTTGAGGAGGTGTTATATCCAGCAATGGAGGACTTCCAGATCGATA
TTATGATTGGCGAGGGGCCGGCTGCGCGGTCGATAAAGATCGACTTGCCACCTTTCACTCTCATAGGTGCTACTACTCGT
ACAGGTTTGCTGACTGCGCCGCTGCGCGACCGTTTTGGTATCGTCCAGCGTTTGGAGTTCTATAGTCCTGAGGATCTTGC
TAGGATCGTAAGACGCTCGGCAGGCATTCTCAATATTGACTGTACTACGGAGGGTGCAGCTGAGATTGCGCAACGTGCAC
GCGGTACGCCTCGCATTGCTAATCGTTTGTTGCGGCGGGTACGCGATTATGCCGAGGTTAAGGCGGGTGGGCAGATTACA
ATTGAGGTGGCGCAAGCAGCGATGCAGATGCTCAAGGTTGATCAAGGAGGCTTTGATGAACTAGACCGACGCTTGCTTCA
CACCATCGTTGAGTATTTCGACGGCGGTCCTGTCGGGATCGAGTCACTCGCCGCCTCGTTGTCGGAGGAGCGTGGTACCC
TTGAGGATGTCGTTGAGCCTTACCTAATTCAACAAGGTTTCTTGGTACGTACTGCACGTGGACGTATGGCCACAGATAAG
GCCTACCAGCATCTCGCTCTGCAGCCTCGTGAGCGAGTTTCGGCTTTCACTGATCCAGAAGACTTGTTTTGA

Domains

Predicted by InterProScan.

RuvB C-terminal winged helix domain (WHD_RuvB)

(256-325)

RuvB AAA lid domain (AAA_lid_4)

(181-254)

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

(20-178)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB B0U2E3

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 Streptococcus pneumoniae TIGR4

56.627

96.793

0.548
  ruvB Streptococcus pneumoniae R6

56.627

96.793

0.548
  ruvB Streptococcus pneumoniae D39

56.627

96.793

0.548
  ruvB Bacillus subtilis subsp. subtilis str. 168

56.364

96.21

0.542
  ruvB Helicobacter pylori 26695

53.681

95.044

0.51
  ruvB Synechocystis sp. PCC 6803

53.459

92.711

0.496