Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   D934_RS08860 Genome accession   NZ_CP006696
Coordinates   1875118..1876149 (-) Length   343 a.a.
NCBI ID   WP_042836578.1    Uniprot ID   -
Organism   Xylella fastidiosa subsp. sandyi Ann-1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1870118..1881149
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D934_RS08830 (D934_09440) pal 1870172..1870711 (-) 540 WP_004572905.1 peptidoglycan-associated lipoprotein Pal -
  D934_RS08835 (D934_09445) tolB 1870777..1872096 (-) 1320 WP_024748818.1 Tol-Pal system beta propeller repeat protein TolB -
  D934_RS08840 (D934_09450) tolA 1872365..1873417 (-) 1053 WP_020852771.1 cell envelope integrity protein TolA -
  D934_RS08845 (D934_09455) tolR 1873407..1873835 (-) 429 WP_038274103.1 protein TolR -
  D934_RS08850 (D934_09460) tolQ 1873878..1874651 (-) 774 WP_020852773.1 protein TolQ -
  D934_RS08855 (D934_09465) ybgC 1874675..1875100 (-) 426 WP_004572900.1 tol-pal system-associated acyl-CoA thioesterase -
  D934_RS08860 (D934_09470) ruvB 1875118..1876149 (-) 1032 WP_042836578.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  D934_RS08865 (D934_09475) - 1876210..1878114 (-) 1905 WP_042836579.1 potassium transporter Kup -
  D934_RS08870 (D934_09480) ruvA 1878169..1878753 (-) 585 WP_024748695.1 Holliday junction branch migration protein RuvA -
  D934_RS08875 (D934_09485) ruvC 1878839..1879360 (-) 522 WP_011097831.1 crossover junction endodeoxyribonuclease RuvC -
  D934_RS08880 (D934_09490) - 1879480..1880214 (-) 735 WP_004572895.1 YebC/PmpR family DNA-binding transcriptional regulator -
  D934_RS13775 - 1880343..1880852 (-) 510 WP_230577777.1 DUF2726 domain-containing protein -

Sequence

Protein


Download         Length: 343 a.a.        Molecular weight: 38119.69 Da        Isoelectric Point: 4.8169

>NTDB_id=100951 D934_RS08860 WP_042836578.1 1875118..1876149(-) (ruvB) [Xylella fastidiosa subsp. sandyi Ann-1]
MDRIIDTAATREDEAIEVSIRPKRLADYLGQQPVREQMDIYIQATKARAEALDHVLIFGPPGLGKTTLSHVIAYELGVKL
RVTSGPVIEKAGDLAALLTNLQPYDVLFIDEIHRLSPVVEEVLYPAMEDFQIDIMIGEGPAARSIKIDLPPFTLIGATTR
TGLLTAPLRDRFGIVQRLEFYSPEDLARIVRRSAGILNIDCTTEGAAEIAQRARGTPRIANRLLRRVRDYAEVKADGQIT
IEVAQAAMQMLKVDQGGFDELDRRLLHTIVEYFDGGPVGIESLAASLSEERGTLEDVVEPYLIQQGFLVRTARGRMATDK
AYQHLALQPRERVSAFTDPEDLF

Nucleotide


Download         Length: 1032 bp        

>NTDB_id=100951 D934_RS08860 WP_042836578.1 1875118..1876149(-) (ruvB) [Xylella fastidiosa subsp. sandyi Ann-1]
ATGGATCGCATCATCGACACCGCAGCCACCCGTGAGGATGAAGCGATTGAGGTCAGTATTCGTCCCAAGCGTTTGGCTGA
TTATCTCGGCCAACAACCTGTACGTGAGCAGATGGATATCTACATCCAAGCCACTAAGGCGCGTGCTGAGGCACTGGATC
ACGTACTCATTTTTGGTCCACCTGGATTGGGCAAGACCACCTTGAGCCATGTCATTGCTTACGAACTCGGGGTCAAGCTA
CGTGTGACTTCTGGTCCAGTGATCGAGAAAGCAGGAGATCTGGCCGCACTTCTTACCAATCTACAGCCTTACGATGTGCT
GTTTATTGATGAGATTCATCGGCTATCACCAGTAGTTGAGGAGGTGTTATATCCAGCAATGGAGGACTTCCAGATCGATA
TTATGATTGGCGAGGGGCCGGCTGCGCGGTCGATAAAGATCGACTTGCCACCTTTCACTCTCATAGGTGCTACTACTCGT
ACAGGTTTGCTGACTGCGCCGCTGCGCGACCGTTTTGGTATCGTCCAGCGTTTGGAGTTCTATAGTCCTGAGGATCTTGC
TAGGATCGTAAGACGCTCGGCAGGCATTCTCAATATCGACTGTACTACGGAGGGTGCAGCTGAGATTGCGCAACGTGCAC
GCGGTACGCCTCGCATTGCTAATCGTTTGTTGCGGCGGGTACGCGATTATGCCGAGGTTAAGGCGGATGGGCAGATTACA
ATTGAGGTGGCGCAAGCAGCGATGCAGATGCTCAAGGTTGATCAAGGAGGCTTTGATGAACTAGACCGACGCTTGCTTCA
CACCATCGTTGAGTATTTCGACGGCGGTCCTGTCGGAATCGAGTCACTCGCCGCCTCGTTGTCGGAGGAGCGTGGTACCC
TTGAGGATGTCGTTGAGCCTTACCTAATTCAACAAGGTTTCTTGGTACGTACTGCACGTGGACGTATGGCCACAGATAAG
GCCTACCAGCATCTCGCTCTGCAGCCTCGTGAGCGAGTTTCGGCTTTCACTGATCCAGAAGATTTGTTTTGA

Domains

Predicted by InterProScan.

RuvB C-terminal winged helix domain (WHD_RuvB)

(256-325)

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

(20-178)

RuvB AAA lid domain (AAA_lid_4)

(181-254)


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 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

56.667

96.21

0.545
  ruvB Helicobacter pylori 26695

53.681

95.044

0.51
  ruvB Synechocystis sp. PCC 6803

53.459

92.711

0.496