Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   VC0395_RS12575 Genome accession   NC_009457
Coordinates   1537998..1539002 (-) Length   334 a.a.
NCBI ID   WP_000568492.1    Uniprot ID   A5F760
Organism   Vibrio cholerae O395     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1532998..1544002
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VC0395_RS12545 (VC0395_A1432) tolQ 1533121..1533804 (-) 684 WP_000123084.1 protein TolQ -
  VC0395_RS12550 ybgC 1533794..1534200 (-) 407 Protein_1371 tol-pal system-associated acyl-CoA thioesterase -
  VC0395_RS12555 ybgE 1534369..1534686 (-) 318 WP_001286617.1 cyd operon protein YbgE -
  VC0395_RS12560 cydX 1534679..1534786 (-) 108 WP_000270285.1 cytochrome bd-I oxidase subunit CydX -
  VC0395_RS12565 (VC0395_A1434) cydB 1534799..1535935 (-) 1137 WP_000460767.1 cytochrome d ubiquinol oxidase subunit II -
  VC0395_RS12570 (VC0395_A1435) cydA 1535953..1537539 (-) 1587 WP_000568056.1 cytochrome ubiquinol oxidase subunit I -
  VC0395_RS12575 (VC0395_A1436) ruvB 1537998..1539002 (-) 1005 WP_000568492.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  VC0395_RS12580 (VC0395_A1437) ruvA 1539058..1539672 (-) 615 WP_000580359.1 Holliday junction branch migration protein RuvA Machinery gene
  VC0395_RS12585 (VC0395_A1438) ruvC 1539769..1540290 (-) 522 WP_000111361.1 crossover junction endodeoxyribonuclease RuvC -
  VC0395_RS12590 (VC0395_A1439) cysS 1540378..1541757 (-) 1380 WP_000913180.1 cysteine--tRNA ligase -
  VC0395_RS12595 (VC0395_A1440) - 1541903..1542397 (+) 495 WP_000631302.1 peptidylprolyl isomerase -
  VC0395_RS12600 (VC0395_A1441) lpxH 1542438..1543178 (+) 741 WP_000557000.1 UDP-2,3-diacylglucosamine diphosphatase -

Sequence

Protein


Download         Length: 334 a.a.        Molecular weight: 37326.80 Da        Isoelectric Point: 5.0460

>NTDB_id=26558 VC0395_RS12575 WP_000568492.1 1537998..1539002(-) (ruvB) [Vibrio cholerae O395]
MIEADRLIAPISNHFKDEEVIDRAIRPKKLADYQGQDHVRDQMEIFIQAAQMRQEALDHLLIFGPPGLGKTTLANIVANE
MGVNIRTTSGPVLEKAGDLAALLTNLEENDVLFIDEIHRLSPMVEEVLYPAMEDYQLDIMIGEGPAARSIKIDLPPFTLI
GATTRAGSLTSPLRDRFGIVQRLEYYKVADLQHIVQRSAQCLGLSMDSEGALEVARRARGTPRIVNRLLRRVRDYAEVKG
DGHICAQTADRALNMLDVDHQGFDYMDRKLLLAIMEKFSGGPVGIDNLAAAIGEEKDTIEDVLEPFLIQQGYLQRTPRGR
IATDRAYLHFGIEK

Nucleotide


Download         Length: 1005 bp        

>NTDB_id=26558 VC0395_RS12575 WP_000568492.1 1537998..1539002(-) (ruvB) [Vibrio cholerae O395]
ATGATAGAAGCCGATCGTTTAATTGCTCCAATCAGCAACCACTTCAAAGATGAGGAAGTGATTGATCGAGCGATTCGTCC
CAAAAAGCTTGCCGATTACCAAGGTCAAGATCATGTTCGTGATCAGATGGAAATCTTCATTCAAGCGGCACAAATGCGCC
AAGAAGCCTTAGATCATCTGCTGATTTTCGGGCCTCCGGGCTTGGGTAAAACCACCTTGGCCAACATAGTCGCTAACGAA
ATGGGCGTGAATATTCGTACTACTTCAGGTCCTGTATTGGAAAAAGCGGGAGATTTAGCGGCACTGCTAACCAATCTTGA
AGAAAACGATGTGCTGTTTATTGATGAAATCCATCGTCTGAGCCCAATGGTTGAGGAAGTACTGTATCCCGCTATGGAAG
ATTACCAACTCGATATCATGATTGGTGAAGGCCCAGCTGCACGCTCAATCAAAATCGATCTCCCTCCTTTTACTTTAATT
GGAGCCACCACACGTGCAGGCTCGCTGACTTCACCACTGCGTGACCGATTTGGGATTGTGCAACGATTGGAGTATTACAA
AGTCGCCGATTTACAACACATAGTGCAACGTAGTGCACAGTGTCTCGGTCTTTCGATGGATAGTGAGGGCGCTCTTGAAG
TGGCTCGCCGTGCACGTGGAACCCCACGGATTGTCAATCGCCTGCTGCGCCGGGTACGAGATTATGCCGAAGTAAAAGGG
GATGGGCACATTTGTGCGCAAACCGCTGACAGGGCACTCAATATGCTTGATGTTGACCATCAAGGCTTTGATTACATGGA
TAGAAAGCTGCTGTTAGCAATAATGGAAAAGTTTTCAGGTGGCCCAGTCGGAATCGATAACCTTGCGGCAGCTATTGGCG
AAGAGAAAGATACGATAGAAGATGTTCTTGAGCCATTTCTCATTCAGCAGGGTTATTTACAACGTACACCACGCGGTCGT
ATCGCGACAGATCGCGCTTATTTGCATTTCGGTATTGAAAAATAA

Domains

Predicted by InterProScan.

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

(25-183)

RuvB C-terminal winged helix domain (WHD_RuvB)

(261-330)

RuvB AAA lid domain (AAA_lid_4)

(186-259)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A5F760

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 Bacillus subtilis subsp. subtilis str. 168

61.371

96.108

0.59
  ruvB Streptococcus pneumoniae TIGR4

59.621

94.91

0.566
  ruvB Streptococcus pneumoniae R6

59.621

94.91

0.566
  ruvB Streptococcus pneumoniae D39

59.621

94.91

0.566
  ruvB Synechocystis sp. PCC 6803

55.34

92.515

0.512
  ruvB Helicobacter pylori 26695

53.947

91.018

0.491

Multiple sequence alignment