Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   PGK76_RS00215 Genome accession   NZ_CP168322
Coordinates   37907..38929 (+) Length   340 a.a.
NCBI ID   WP_154469136.1    Uniprot ID   -
Organism   Riemerella anatipestifer strain RCAD0866     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 32907..43929
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PGK76_RS00185 (PGK76_000185) - 33346..34497 (+) 1152 WP_229578710.1 aldo/keto reductase -
  PGK76_RS00190 (PGK76_000190) - 34509..35273 (+) 765 WP_154469138.1 enoyl-CoA hydratase/isomerase family protein -
  PGK76_RS00195 (PGK76_000195) - 35299..35730 (+) 432 WP_004916535.1 dCMP deaminase family protein -
  PGK76_RS00200 (PGK76_000200) xerD 35731..36642 (+) 912 WP_079207473.1 site-specific tyrosine recombinase XerD -
  PGK76_RS00205 (PGK76_000205) - 36647..37159 (+) 513 WP_154469137.1 NUDIX domain-containing protein -
  PGK76_RS00210 (PGK76_000210) - 37238..37744 (+) 507 WP_004916526.1 ferritin -
  PGK76_RS00215 (PGK76_000215) ruvB 37907..38929 (+) 1023 WP_154469136.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  PGK76_RS00220 (PGK76_000220) - 38966..39832 (+) 867 WP_038693534.1 MBL fold metallo-hydrolase -
  PGK76_RS00225 (PGK76_000225) coaE 39848..40438 (+) 591 WP_004916520.1 dephospho-CoA kinase -
  PGK76_RS00230 (PGK76_000230) - 40451..41440 (+) 990 WP_038693536.1 cation diffusion facilitator family transporter -
  PGK76_RS00235 (PGK76_000235) uvrC 41460..43250 (+) 1791 WP_185148441.1 excinuclease ABC subunit UvrC Machinery gene
  PGK76_RS00240 (PGK76_000240) - 43240..43650 (-) 411 WP_154469134.1 VanZ family protein -

Sequence

Protein


Download         Length: 340 a.a.        Molecular weight: 38030.70 Da        Isoelectric Point: 5.1930

>NTDB_id=935546 PGK76_RS00215 WP_154469136.1 37907..38929(+) (ruvB) [Riemerella anatipestifer strain RCAD0866]
MPDFLHPDKENYSAEELLLEEQIRPQSFKDFAGQRRTLDNLEVFVAAAKKRGSALDHTLLHGPPGLGKTTLAHIIANELG
VGFKVTSGPVLDKPGSLAGLLTNLEENDVLFIDEIHRLSPVVEEYLYSAMEDYKIDIMLETGPNARSVQINLNPFTLVGA
TTRSGMLTKPMLARFGIQSRLEYYTVELLGMIIERSARVLGVPIYEDAALEIARRSRGTPRIANALLRRVRDFAEIKGNG
EIEIKITKFALDSLNVDEFGLDDMDNKIMRVMIENFKGKPVGISALATSIGENPETLEEVYEPFLIQEGFIIRTPRGREV
TDKAYRHLNISRAKNMGELF

Nucleotide


Download         Length: 1023 bp        

>NTDB_id=935546 PGK76_RS00215 WP_154469136.1 37907..38929(+) (ruvB) [Riemerella anatipestifer strain RCAD0866]
ATGCCAGACTTCTTACATCCAGATAAAGAAAATTATTCAGCCGAAGAGCTTTTATTAGAAGAGCAAATACGCCCTCAATC
ATTCAAAGATTTTGCTGGGCAAAGGCGTACTTTGGATAATTTAGAAGTCTTTGTAGCGGCTGCCAAAAAACGAGGTTCTG
CACTAGACCACACACTTTTACATGGTCCTCCAGGGTTAGGGAAAACCACTCTAGCCCACATTATTGCTAATGAACTTGGT
GTGGGTTTTAAAGTAACCTCTGGTCCTGTCTTAGACAAACCCGGAAGTTTAGCTGGACTTCTTACCAATTTAGAAGAAAA
CGATGTTCTTTTCATAGACGAAATACACCGTTTATCTCCCGTAGTAGAAGAGTACCTCTATTCCGCTATGGAAGATTACA
AGATAGATATTATGCTAGAAACAGGTCCTAATGCCCGTTCAGTACAAATCAATCTTAATCCGTTTACTTTAGTTGGAGCC
ACTACAAGAAGTGGTATGCTTACCAAACCAATGCTAGCGAGATTTGGGATACAATCTAGATTAGAGTACTACACAGTAGA
ACTTTTAGGTATGATTATCGAAAGAAGTGCTAGAGTGCTTGGCGTTCCTATTTATGAAGATGCTGCACTAGAGATAGCTA
GAAGAAGCCGAGGCACTCCTAGAATTGCGAATGCTCTACTTCGCCGTGTGCGAGATTTTGCAGAAATAAAAGGCAATGGC
GAGATAGAAATAAAGATAACCAAATTCGCACTAGATTCTCTCAATGTAGATGAGTTTGGGCTTGATGATATGGACAACAA
AATTATGAGGGTGATGATAGAAAACTTCAAAGGTAAACCCGTGGGAATTTCCGCATTAGCCACTTCCATCGGAGAAAATC
CAGAGACTTTGGAAGAAGTTTATGAGCCTTTTTTAATTCAGGAAGGATTTATCATCAGAACGCCAAGAGGAAGAGAAGTT
ACCGATAAGGCTTACCGACACCTCAATATCAGTAGAGCTAAAAATATGGGAGAGCTTTTCTAG

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