Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   J6M00_RS04225 Genome accession   NZ_CP072188
Coordinates   841385..842407 (+) Length   340 a.a.
NCBI ID   WP_004916525.1    Uniprot ID   -
Organism   Riemerella anatipestifer strain 20190121E1-3     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 836385..847407
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J6M00_RS04195 (J6M00_04195) - 836826..837974 (+) 1149 WP_153929191.1 aldo/keto reductase -
  J6M00_RS04200 (J6M00_04200) - 837986..838750 (+) 765 WP_153929192.1 enoyl-CoA hydratase/isomerase family protein -
  J6M00_RS04205 (J6M00_04205) - 838776..839207 (+) 432 WP_004916535.1 dCMP deaminase family protein -
  J6M00_RS04210 (J6M00_04210) xerD 839208..840119 (+) 912 WP_064970463.1 site-specific tyrosine recombinase XerD -
  J6M00_RS04215 (J6M00_04215) - 840124..840636 (+) 513 WP_064970462.1 NUDIX domain-containing protein -
  J6M00_RS04220 (J6M00_04220) - 840715..841221 (+) 507 WP_064970461.1 ferritin -
  J6M00_RS04225 (J6M00_04225) ruvB 841385..842407 (+) 1023 WP_004916525.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  J6M00_RS04230 (J6M00_04230) - 842444..843310 (+) 867 WP_004916523.1 MBL fold metallo-hydrolase -
  J6M00_RS04235 (J6M00_04235) coaE 843326..843916 (+) 591 WP_004916520.1 dephospho-CoA kinase -
  J6M00_RS04240 (J6M00_04240) - 843929..844918 (+) 990 WP_004916518.1 cation diffusion facilitator family transporter -
  J6M00_RS04245 (J6M00_04245) uvrC 844938..846728 (+) 1791 WP_015345294.1 excinuclease ABC subunit UvrC Machinery gene
  J6M00_RS04250 (J6M00_04250) - 846718..847128 (-) 411 WP_154469134.1 VanZ family protein -

Sequence

Protein


Download         Length: 340 a.a.        Molecular weight: 38002.65 Da        Isoelectric Point: 5.0754

>NTDB_id=481010 J6M00_RS04225 WP_004916525.1 841385..842407(+) (ruvB) [Riemerella anatipestifer strain 20190121E1-3]
MPDFLHPDKENYSAEELLLEEQIRPQSFKDFAGQRRTLDNLEVFVAAAKKRGSALDHTLLHGPPGLGKTTLAHIIANELG
VGFKVTSGPVLDKPGSLAGLLTNLEENDVLFIDEIHRLSPVVEEYLYSAMEDYKIDIMLETGPNARSVQINLNPFTLVGA
TTRSGMLTKPMLARFGIQSRLEYYTVELLGMIIERSARVLGVPIYEDAALEIARRSRGTPRIANALLRRVRDFAEIKGNG
EIEIKITKFALDSLNVDEFGLDDMDNKIMRVMIENFKGKPVGISALATSIGENPETLEEVYEPFLIQEGFIIRTPRGREV
TDKAYQHLNISRAKNMGELF

Nucleotide


Download         Length: 1023 bp        

>NTDB_id=481010 J6M00_RS04225 WP_004916525.1 841385..842407(+) (ruvB) [Riemerella anatipestifer strain 20190121E1-3]
ATGCCAGACTTCTTACATCCAGATAAAGAAAATTATTCAGCCGAAGAGCTTTTATTAGAAGAGCAAATACGCCCTCAATC
ATTCAAAGATTTTGCGGGGCAAAGGCGTACTTTGGATAATTTAGAAGTCTTTGTAGCAGCTGCCAAAAAACGAGGTTCTG
CACTAGACCACACACTTTTGCATGGTCCTCCAGGGTTAGGGAAAACCACTCTAGCCCACATTATTGCTAATGAATTGGGC
GTGGGTTTTAAAGTAACCTCTGGTCCTGTTTTAGACAAACCTGGAAGTTTGGCAGGACTCCTTACCAACTTAGAAGAAAA
CGATGTTCTTTTCATAGACGAAATACACCGTTTATCTCCCGTAGTAGAAGAGTACCTCTATTCCGCTATGGAAGACTACA
AGATAGATATTATGCTAGAAACAGGTCCTAATGCTCGTTCAGTACAAATCAATCTTAATCCGTTTACATTGGTTGGAGCT
ACTACAAGAAGTGGCATGCTTACCAAACCAATGCTAGCAAGATTTGGGATACAATCTAGGTTAGAGTACTACACGGTAGA
GCTTTTAGGTATGATTATCGAAAGAAGTGCTAGAGTGCTTGGCGTTCCTATTTATGAAGATGCAGCACTAGAGATAGCTA
GAAGAAGCCGAGGCACTCCTAGAATTGCTAACGCTCTACTTCGCCGTGTGCGAGATTTTGCGGAAATAAAAGGCAATGGC
GAGATAGAAATAAAGATAACCAAATTCGCACTAGATTCTCTCAATGTAGATGAATTTGGGCTTGATGATATGGACAACAA
AATTATGAGAGTGATGATAGAAAACTTCAAAGGAAAACCTGTGGGGATTTCTGCATTAGCCACTTCTATCGGAGAAAATC
CAGAGACTTTGGAAGAAGTTTATGAGCCTTTTTTAATTCAAGAAGGATTCATCATCAGAACACCAAGAGGTCGAGAAGTT
ACCGATAAGGCTTACCAACACCTTAACATCAGTAGAGCTAAAAATATGGGAGAGCTTTTCTAA

Domains

Predicted by InterProScan.

RuvB C-terminal winged helix domain (WHD_RuvB)

(258-329)

RuvB AAA lid domain (AAA_lid_4)

(184-257)

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

(23-181)


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