Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   RJW51_RS07190 Genome accession   NZ_CP134491
Coordinates   1409803..1411170 (+) Length   455 a.a.
NCBI ID   WP_172089726.1    Uniprot ID   -
Organism   Streptococcus parasuis strain 1628469     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 1397835..1409256 1409803..1411170 flank 547


Gene organization within MGE regions


Location: 1397835..1411170
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJW51_RS07110 (RJW51_07095) - 1398500..1398982 (-) 483 WP_397610454.1 DUF1492 domain-containing protein -
  RJW51_RS07115 (RJW51_07100) - 1399317..1399820 (-) 504 WP_397610455.1 hypothetical protein -
  RJW51_RS07120 (RJW51_07105) - 1399906..1400469 (-) 564 WP_172089724.1 hypothetical protein -
  RJW51_RS07125 (RJW51_07110) - 1400653..1400826 (-) 174 WP_172089660.1 hypothetical protein -
  RJW51_RS07130 (RJW51_07115) - 1401164..1402666 (-) 1503 WP_172089661.1 phage/plasmid primase, P4 family -
  RJW51_RS07135 (RJW51_07120) - 1402686..1403555 (-) 870 WP_172089662.1 primase C-terminal domain-containing protein -
  RJW51_RS07140 (RJW51_07125) - 1403690..1403971 (-) 282 WP_172089664.1 XRE family transcriptional regulator -
  RJW51_RS07145 (RJW51_07130) - 1403964..1404299 (-) 336 WP_105156231.1 hypothetical protein -
  RJW51_RS07150 (RJW51_07135) - 1404296..1404445 (-) 150 WP_162841323.1 hypothetical protein -
  RJW51_RS07155 (RJW51_07140) - 1404636..1405031 (-) 396 WP_172089665.1 hypothetical protein -
  RJW51_RS07160 (RJW51_07145) - 1405482..1406111 (-) 630 WP_172089666.1 Rha family transcriptional regulator -
  RJW51_RS07165 (RJW51_07150) - 1406123..1406323 (-) 201 WP_024417794.1 helix-turn-helix transcriptional regulator -
  RJW51_RS07170 (RJW51_07155) - 1406527..1407051 (+) 525 WP_024417793.1 helix-turn-helix domain-containing protein -
  RJW51_RS07175 (RJW51_07160) - 1407570..1408715 (+) 1146 WP_172089725.1 tyrosine-type recombinase/integrase -
  RJW51_RS07180 (RJW51_07165) - 1408813..1409256 (+) 444 WP_024388517.1 dUTP diphosphatase -
  RJW51_RS07185 (RJW51_07170) - 1409263..1409796 (+) 534 WP_024389493.1 histidine phosphatase family protein -
  RJW51_RS07190 (RJW51_07175) radA 1409803..1411170 (+) 1368 WP_172089726.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 49885.41 Da        Isoelectric Point: 6.1911

>NTDB_id=880385 RJW51_RS07190 WP_172089726.1 1409803..1411170(+) (radA) [Streptococcus parasuis strain 1628469]
MIIAKKKTTFVCQSCEYHSPKYLGRCPNCGSWSSFVEEVEVAEVKNERVSLTGEKTRPMKLNEVSTIQVARTKTNMEEFN
RVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSTIGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSIRTE
IEKIKPDFLIIDSIQTIMSPDISSVQGSVSQVREVTNELMQIAKTNNIATFIVGHMTKEGTLAGPRTLEHMVDTVLYFEG
ERQHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVLNPSEVFLEERLDGATGSAIVVTMEGTRPILAEVQALVTPTMFGN
AKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVALASSYKDKPTNPQECFIGEIGLTGE
IRRVNRIEQRINEAAKLGFTKVYAPKNSLTGIKVPKEITVIGVTTIGEVLQKVFN

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=880385 RJW51_RS07190 WP_172089726.1 1409803..1411170(+) (radA) [Streptococcus parasuis strain 1628469]
ATCATCATCGCTAAGAAAAAAACAACCTTTGTCTGTCAATCTTGCGAGTACCACTCGCCCAAGTATCTGGGTCGTTGCCC
CAACTGCGGCTCCTGGTCTAGCTTTGTCGAGGAAGTGGAAGTCGCTGAAGTTAAGAACGAGCGGGTTAGCCTGACAGGTG
AGAAGACCCGTCCCATGAAACTCAATGAAGTTTCCACCATTCAAGTGGCTCGTACCAAGACCAACATGGAGGAGTTCAAC
CGCGTCCTCGGTGGTGGAGTGGTGCCGGGCAGTCTAGTTCTCATTGGAGGCGATCCAGGGATTGGCAAGTCCACCTTGCT
CCTGCAAGTATCCACTCAGCTGTCTACAATTGGCACGGTCCTCTATGTGTCGGGGGAAGAGTCTGCCCAGCAGATTAAGT
TGCGAGCCGAGCGTTTGGGCGACATCGACAGCGAGTTCTATCTCTATGCGGAGACCAATATGCAGAGCATTCGGACCGAG
ATTGAGAAGATAAAACCAGATTTTCTGATTATCGACTCTATCCAGACCATTATGAGCCCTGACATTTCTAGCGTGCAAGG
TTCTGTCAGTCAGGTCCGTGAAGTGACCAATGAGCTCATGCAGATTGCCAAGACCAACAATATCGCAACCTTTATCGTCG
GTCACATGACCAAGGAAGGCACTCTGGCTGGACCGCGGACCTTGGAGCACATGGTGGATACCGTTCTTTATTTTGAGGGC
GAGCGGCAGCACACCTTCCGTATCTTGCGCGCGGTCAAAAACCGTTTTGGTTCTACCAACGAAATCGGCATTTTTGAAAT
GCAGTCGCAGGGCTTGGTCGAAGTTCTCAATCCAAGTGAGGTCTTTCTGGAAGAGCGTCTGGACGGAGCGACAGGCTCTG
CTATTGTCGTGACCATGGAGGGCACCCGCCCTATCCTTGCCGAAGTACAGGCTCTGGTGACCCCGACCATGTTTGGCAAT
GCCAAGCGGACCACGACAGGACTGGATTTCAACCGTGCCAGCTTGATTATGGCGGTTTTGGAAAAACGGGCAGGCCTGCT
CCTCCAAAACCAAGATGCCTACCTTAAGTCAGCAGGCGGTGTCAAACTGGATGAGCCAGCCATTGACCTAGCGGTCGCAG
TTGCCCTTGCCTCCAGTTACAAAGACAAGCCAACCAACCCACAAGAGTGCTTTATAGGCGAAATTGGTCTGACAGGTGAA
ATCCGCCGCGTCAATCGGATTGAACAACGGATTAACGAAGCCGCCAAATTGGGCTTTACCAAGGTCTATGCCCCTAAAAA
TTCCCTGACAGGTATCAAGGTACCCAAGGAAATCACGGTTATCGGCGTGACCACCATTGGCGAAGTCTTACAGAAAGTAT
TTAACTAA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(10-37)

Subunit ChlI of Mg-chelatase (ChlI)

(363-427)

AAA domain (AAA_25)

(64-220)


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
  radA Streptococcus mitis NCTC 12261

91.15

99.341

0.905
  radA Streptococcus pneumoniae D39

90.929

99.341

0.903
  radA Streptococcus pneumoniae R6

90.929

99.341

0.903
  radA Streptococcus pneumoniae Rx1

90.929

99.341

0.903
  radA Streptococcus pneumoniae TIGR4

90.929

99.341

0.903
  radA Streptococcus mitis SK321

90.708

99.341

0.901
  radA Bacillus subtilis subsp. subtilis str. 168

62.472

99.56

0.622