Detailed information    

insolico Bioinformatically predicted

Overview

Name   ruvB   Type   Machinery gene
Locus tag   VCD_RS08040 Genome accession   NC_012668
Coordinates   1661607..1662611 (+) Length   334 a.a.
NCBI ID   WP_000568491.1    Uniprot ID   Q9KR02
Organism   Vibrio cholerae MJ-1236     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1656607..1667611
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VCD_RS08015 (VCD_002526) lpxH 1657431..1658171 (-) 741 WP_000557000.1 UDP-2,3-diacylglucosamine diphosphatase -
  VCD_RS08020 (VCD_002527) - 1658212..1658706 (-) 495 WP_000631302.1 peptidylprolyl isomerase -
  VCD_RS08025 (VCD_002528) cysS 1658852..1660231 (+) 1380 WP_000913180.1 cysteine--tRNA ligase -
  VCD_RS08030 (VCD_002529) ruvC 1660319..1660840 (+) 522 WP_000111361.1 crossover junction endodeoxyribonuclease RuvC -
  VCD_RS08035 (VCD_002530) ruvA 1660937..1661551 (+) 615 WP_000580359.1 Holliday junction branch migration protein RuvA Machinery gene
  VCD_RS08040 (VCD_002531) ruvB 1661607..1662611 (+) 1005 WP_000568491.1 Holliday junction branch migration DNA helicase RuvB Machinery gene
  VCD_RS08045 (VCD_002532) cydA 1663070..1664656 (+) 1587 WP_000568056.1 cytochrome ubiquinol oxidase subunit I -
  VCD_RS08050 (VCD_002533) cydB 1664674..1665810 (+) 1137 WP_000460767.1 cytochrome d ubiquinol oxidase subunit II -
  VCD_RS08055 (VCD_002534) cydX 1665823..1665930 (+) 108 WP_000270285.1 cytochrome bd-I oxidase subunit CydX -
  VCD_RS08060 (VCD_002535) ybgE 1665923..1666240 (+) 318 WP_001286617.1 cyd operon protein YbgE -
  VCD_RS08065 ybgC 1666409..1666816 (+) 408 WP_001091290.1 tol-pal system-associated acyl-CoA thioesterase -
  VCD_RS08070 (VCD_002537) tolQ 1666806..1667489 (+) 684 WP_000123084.1 protein TolQ -

Sequence

Protein


Download         Length: 334 a.a.        Molecular weight: 37298.75 Da        Isoelectric Point: 5.0460

>NTDB_id=30512 VCD_RS08040 WP_000568491.1 1661607..1662611(+) (ruvB) [Vibrio cholerae MJ-1236]
MIEADRLIAPISNHFKDEEVIDRAIRPKKLADYQGQDHVRDQMEIFIQAAQMRQEALDHLLIFGPPGLGKTTLANIVANE
MGVNIRTTSGPVLEKAGDLAALLTNLEENDVLFIDEIHRLSPMVEEVLYPAMEDYQLDIMIGEGPAARSIKIDLPPFTLI
GATTRAGSLTSPLRDRFGIVQRLEYYKVADLQHIVQRSAQCLGLSMDSEGALEVARRARGTPRIANRLLRRVRDYAEVKG
DGHICAQTADRALNMLDVDHQGFDYMDRKLLLAIMEKFSGGPVGIDNLAAAIGEEKDTIEDVLEPFLIQQGYLQRTPRGR
IATDRAYLHFGIEK

Nucleotide


Download         Length: 1005 bp        

>NTDB_id=30512 VCD_RS08040 WP_000568491.1 1661607..1662611(+) (ruvB) [Vibrio cholerae MJ-1236]
ATGATAGAAGCCGATCGTTTAATTGCTCCAATCAGCAACCACTTCAAAGATGAGGAAGTGATTGATCGAGCGATTCGTCC
CAAAAAGCTTGCCGATTACCAAGGTCAAGATCATGTTCGTGATCAGATGGAAATCTTCATTCAAGCGGCACAAATGCGCC
AAGAAGCCTTAGATCATCTGCTGATTTTCGGGCCTCCGGGCTTGGGTAAAACCACCTTGGCCAACATAGTCGCTAACGAA
ATGGGCGTGAATATTCGTACTACTTCAGGTCCTGTATTGGAAAAAGCGGGAGATTTAGCGGCACTGCTAACCAATCTTGA
AGAAAACGATGTGCTGTTTATTGATGAAATCCATCGTCTGAGCCCAATGGTTGAGGAAGTACTGTATCCCGCTATGGAAG
ATTACCAACTCGATATCATGATTGGTGAAGGCCCAGCTGCACGCTCAATCAAAATCGATCTCCCTCCTTTTACTTTAATT
GGAGCCACCACACGTGCAGGCTCGCTGACTTCACCACTGCGTGACCGATTTGGGATTGTGCAACGATTGGAGTATTACAA
AGTCGCCGATTTACAACACATAGTGCAACGTAGTGCACAGTGTCTCGGTCTTTCGATGGATAGTGAGGGCGCTCTTGAAG
TGGCTCGCCGTGCACGTGGAACCCCACGGATTGCCAATCGCCTGCTGCGCCGGGTACGAGATTATGCCGAAGTAAAAGGG
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 Q9KR02

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

61.682

96.108

0.593
  ruvB Streptococcus pneumoniae TIGR4

59.937

94.91

0.569
  ruvB Streptococcus pneumoniae R6

59.937

94.91

0.569
  ruvB Streptococcus pneumoniae D39

59.937

94.91

0.569
  ruvB Synechocystis sp. PCC 6803

55.663

92.515

0.515
  ruvB Helicobacter pylori 26695

54.276

91.018

0.494

Multiple sequence alignment