Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   D1J36_RS02425 Genome accession   NZ_CP073239
Coordinates   516366..517388 (+) Length   340 a.a.
NCBI ID   WP_154138220.1    Uniprot ID   -
Organism   Riemerella anatipestifer strain RCAD0416     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 511366..522388
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D1J36_RS02395 (D1J36_002390) - 511802..512953 (+) 1152 WP_154138215.1 aldo/keto reductase -
  D1J36_RS02400 (D1J36_002395) - 512966..513730 (+) 765 WP_154138216.1 enoyl-CoA hydratase-related protein -
  D1J36_RS02405 (D1J36_002400) - 513757..514188 (+) 432 WP_154138217.1 dCMP deaminase family protein -
  D1J36_RS02410 (D1J36_002405) xerD 514189..515100 (+) 912 WP_154138218.1 site-specific tyrosine recombinase XerD -
  D1J36_RS02415 (D1J36_002410) - 515105..515617 (+) 513 WP_154138219.1 NUDIX domain-containing protein -
  D1J36_RS02420 (D1J36_002415) - 515696..516202 (+) 507 WP_079207465.1 ferritin -
  D1J36_RS02425 (D1J36_002420) ruvB 516366..517388 (+) 1023 WP_154138220.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  D1J36_RS02430 (D1J36_002425) - 517425..518291 (+) 867 WP_154138221.1 MBL fold metallo-hydrolase -
  D1J36_RS02435 (D1J36_002430) coaE 518307..518897 (+) 591 WP_154138222.1 dephospho-CoA kinase -
  D1J36_RS02440 (D1J36_002435) - 518911..519900 (+) 990 WP_154138223.1 cation diffusion facilitator family transporter -
  D1J36_RS02445 (D1J36_002440) uvrC 519920..521710 (+) 1791 WP_252339415.1 excinuclease ABC subunit UvrC Machinery gene

Sequence

Protein


Download         Length: 340 a.a.        Molecular weight: 38118.77 Da        Isoelectric Point: 5.1930

>NTDB_id=487104 D1J36_RS02425 WP_154138220.1 516366..517388(+) (ruvB) [Riemerella anatipestifer strain RCAD0416]
MPDFLHPDKENYSAEELLLEEQIRPQSFKDFAGQRRTLDNLEVFVAAAKKRGSALDHTLLHGPPGLGKTTLAHIIANELG
VGFKVTSGPVLDKPGSLAGLLTNLEENDVLFIDEIHRLSPVVEEYLYSAMEDYKIDIMLETGPNARSVQINLNPFTLVGA
TTRSGMLTKPMLARFGIQSRLEYYTVELLGMIIERSARVLGVRIYEDAALEIARRSRGTPRIANALLRRVRDFAEIKGNG
EIEIKITKFALDSLNVDEFGLDDMDNKIMRVMIENFKGKPVGISALATSIGENPETLEEVYEPFLIQEGFIIRTPRGREV
TDKAYQHLNINRTKNMGELF

Nucleotide


Download         Length: 1023 bp        

>NTDB_id=487104 D1J36_RS02425 WP_154138220.1 516366..517388(+) (ruvB) [Riemerella anatipestifer strain RCAD0416]
ATGCCAGACTTCTTACATCCAGATAAAGAGAATTATTCAGCCGAAGAGCTTTTATTAGAAGAGCAAATACGCCCTCAATC
ATTCAAAGATTTTGCGGGGCAAAGGCGTACCTTGGATAATTTAGAAGTTTTTGTAGCAGCTGCCAAAAAACGAGGTTCTG
CACTAGACCACACACTTTTGCATGGTCCTCCAGGGTTAGGAAAAACCACTCTAGCCCACATTATTGCTAATGAATTGGGC
GTGGGTTTTAAAGTAACCTCTGGTCCCGTTTTAGACAAACCTGGAAGTTTGGCAGGACTCCTTACCAATTTAGAAGAAAA
CGATGTTCTTTTCATAGACGAAATACACCGTTTATCTCCCGTAGTAGAAGAATACCTTTATTCCGCTATGGAAGATTACA
AGATAGATATTATGCTAGAAACAGGACCTAATGCCCGTTCAGTGCAAATCAATCTTAATCCGTTTACTTTAGTTGGAGCC
ACTACAAGAAGCGGTATGCTTACCAAACCAATGCTAGCAAGATTTGGAATACAATCTAGATTAGAGTACTACACAGTAGA
ACTTTTAGGTATGATTATAGAAAGAAGTGCTAGAGTGCTTGGCGTTCGCATTTATGAAGATGCCGCACTAGAAATAGCTA
GAAGAAGCCGAGGCACTCCTAGAATTGCTAATGCTCTACTTCGCCGTGTGCGAGATTTTGCAGAAATAAAAGGCAATGGC
GAGATAGAAATAAAGATAACCAAATTCGCACTAGATTCTCTCAATGTAGATGAGTTTGGGCTTGATGATATGGACAACAA
AATTATGAGGGTAATGATAGAAAACTTCAAAGGAAAACCTGTAGGAATTTCTGCCTTAGCGACTTCCATCGGAGAAAATC
CAGAGACTTTGGAAGAAGTCTATGAGCCTTTTTTAATTCAAGAAGGATTTATCATCAGAACGCCAAGAGGAAGAGAAGTT
ACCGATAAGGCTTACCAACACCTTAACATCAATAGAACTAAAAATATGGGAGAGCTTTTCTAA

Domains

Predicted by InterProScan.

RuvB C-terminal winged helix domain (WHD_RuvB)

(258-329)

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

(23-181)

RuvB AAA lid domain (AAA_lid_4)

(184-257)


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

57.143

92.647

0.529
  ruvB Streptococcus pneumoniae R6

57.143

92.647

0.529
  ruvB Streptococcus pneumoniae D39

57.143

92.647

0.529
  ruvB Bacillus subtilis subsp. subtilis str. 168

56.508

92.647

0.524
  ruvB Synechocystis sp. PCC 6803

47.447

97.941

0.465
  ruvB Helicobacter pylori 26695

47.937

92.647

0.444