Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   E5Z56_RS10525 Genome accession   NZ_CP039381
Coordinates   2237640..2239004 (+) Length   454 a.a.
NCBI ID   WP_138157750.1    Uniprot ID   -
Organism   Ruminococcus bovis strain JE7A12     
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 2224253..2240977 2237640..2239004 within 0


Gene organization within MGE regions


Location: 2224253..2240977
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E5Z56_RS10455 (E5Z56_10455) - 2224253..2225164 (-) 912 WP_138157740.1 Fic family protein -
  E5Z56_RS10460 (E5Z56_10460) - 2225326..2226288 (-) 963 WP_175405466.1 sensor histidine kinase -
  E5Z56_RS10465 (E5Z56_10465) - 2226592..2227293 (-) 702 WP_138157742.1 LytTR family DNA-binding domain-containing protein -
  E5Z56_RS10470 (E5Z56_10470) - 2227668..2227943 (-) 276 WP_138156198.1 integrase core domain-containing protein -
  E5Z56_RS10475 (E5Z56_10475) - 2227940..2228161 (-) 222 WP_138156469.1 hypothetical protein -
  E5Z56_RS10480 (E5Z56_10480) - 2228330..2228560 (-) 231 WP_138156152.1 helix-turn-helix domain-containing protein -
  E5Z56_RS10485 (E5Z56_10485) - 2228746..2229105 (+) 360 WP_138157743.1 hypothetical protein -
  E5Z56_RS10490 (E5Z56_10490) - 2229199..2230356 (+) 1158 WP_138157744.1 ABC transporter permease -
  E5Z56_RS10495 (E5Z56_10495) - 2230469..2231563 (+) 1095 WP_175405467.1 ABC transporter permease -
  E5Z56_RS10500 (E5Z56_10500) - 2231565..2232242 (+) 678 WP_138157746.1 ABC transporter ATP-binding protein -
  E5Z56_RS10505 (E5Z56_10505) - 2232484..2234898 (+) 2415 WP_138157747.1 Ig-like domain-containing protein -
  E5Z56_RS10510 (E5Z56_10510) - 2235233..2235997 (+) 765 WP_138157748.1 Ig-like domain-containing protein -
  E5Z56_RS12250 - 2236008..2236166 (+) 159 Protein_2063 Ig-like domain-containing protein -
  E5Z56_RS11955 - 2236326..2236739 (+) 414 WP_232842442.1 hypothetical protein -
  E5Z56_RS10520 (E5Z56_10520) - 2236923..2237627 (+) 705 WP_138157749.1 N-acetylmuramoyl-L-alanine amidase -
  E5Z56_RS10525 (E5Z56_10525) radA 2237640..2239004 (+) 1365 WP_138157750.1 DNA repair protein RadA Machinery gene
  E5Z56_RS10530 (E5Z56_10530) - 2238997..2239731 (+) 735 WP_138157751.1 DUF6873 family GME fold protein -
  E5Z56_RS10535 (E5Z56_10535) - 2239994..2240977 (+) 984 WP_138157752.1 tyrosine recombinase XerC -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 49715.01 Da        Isoelectric Point: 5.8137

>NTDB_id=358386 E5Z56_RS10525 WP_138157750.1 2237640..2239004(+) (radA) [Ruminococcus bovis strain JE7A12]
MAKIKSVYICSECGYESPKWYGKCPSCGEWNTMNEELVDKKASTVQKSITKSSYSKPVTINTIDTNDEERYNTGSKELDR
VLGGGIVKGSLVLLGGDPGIGKSTILLQICEKLGQSLKILYVSGEESKRQLKLRAQRLGVNNENIYIMTETDVEIVAEQI
KIEKPDLVMIDSIQTMNLTTLNSSPGSVTQVRECTNLLMHTAKDLDIPTIVVGHVNKEGSIAGPKVLEHIVDAVLYFEGD
KQMSYRILRAVKNRYGSTNEIGVFQMTDKGLSEVENPSMMLLSGRPHNVSGTCVACTMEGTRPILAEIQALVTTSGYGTP
RRMSTGYDYNRLALIIAVLEKRAGFYFSNSDTYINVVGGLRLDEPAVDLSVAMALISSLKDVPIPENALAFGEIGLGGEI
RSVANAQARINEASRLGFTKIIIPYHNLKNVSSDTATIYGVKNIREAYEAMLDE

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=358386 E5Z56_RS10525 WP_138157750.1 2237640..2239004(+) (radA) [Ruminococcus bovis strain JE7A12]
ATGGCAAAAATTAAAAGTGTTTATATATGTTCAGAGTGTGGTTATGAATCACCAAAATGGTATGGCAAATGTCCATCATG
TGGTGAATGGAACACTATGAATGAAGAACTAGTTGACAAAAAAGCCTCGACAGTTCAGAAAAGTATTACTAAGTCATCAT
ATTCAAAGCCTGTAACTATCAATACTATTGATACTAATGATGAAGAAAGATATAATACAGGTTCTAAAGAACTAGATAGA
GTTCTTGGTGGAGGTATTGTTAAAGGTAGTCTTGTATTGCTTGGTGGTGATCCCGGTATTGGTAAGTCAACAATTCTACT
TCAAATTTGTGAAAAGCTAGGTCAATCATTAAAGATACTTTATGTATCAGGTGAAGAGTCAAAAAGACAACTTAAACTTA
GAGCTCAACGACTAGGTGTAAATAATGAGAATATTTACATTATGACAGAAACTGATGTTGAGATTGTTGCTGAACAAATC
AAGATTGAAAAACCTGATCTAGTTATGATTGACTCAATCCAAACTATGAATTTAACTACACTAAATTCATCTCCGGGTTC
TGTAACACAGGTTAGAGAATGTACAAATCTACTTATGCACACTGCTAAGGACCTTGATATTCCTACTATTGTAGTTGGCC
ATGTCAACAAAGAAGGGTCAATTGCAGGTCCTAAAGTCTTGGAACATATTGTTGATGCAGTTCTTTATTTTGAGGGTGAC
AAACAAATGTCATACAGAATTTTAAGAGCAGTTAAAAACAGATACGGTTCTACTAATGAAATCGGTGTATTCCAAATGAC
AGATAAAGGTCTTTCAGAAGTTGAAAATCCATCAATGATGTTACTTTCAGGCAGACCTCACAATGTTTCAGGTACTTGTG
TTGCGTGTACAATGGAAGGTACAAGACCAATTTTAGCAGAAATCCAAGCACTTGTTACAACTTCCGGTTATGGTACACCT
AGAAGAATGTCAACAGGCTATGATTATAACAGACTTGCACTTATTATTGCAGTTCTTGAAAAGAGAGCCGGTTTCTATTT
TTCTAATAGTGATACATATATTAATGTTGTTGGTGGTTTGCGACTTGATGAACCGGCTGTTGACTTGTCAGTTGCTATGG
CATTAATCAGCAGTTTAAAGGATGTACCAATCCCGGAAAATGCTCTTGCATTTGGTGAAATTGGTCTTGGTGGTGAAATT
CGTTCAGTAGCAAATGCTCAAGCCAGAATTAATGAGGCATCAAGATTAGGCTTTACAAAAATCATTATTCCATATCACAA
TTTAAAGAATGTAAGCTCTGATACTGCAACAATCTATGGAGTAAAAAATATTAGAGAAGCCTATGAGGCAATGCTTGATG
AGTAA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(342-427)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(68-219)


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 Bacillus subtilis subsp. subtilis str. 168

52.298

100

0.526
  radA Streptococcus pneumoniae Rx1

49.007

99.78

0.489
  radA Streptococcus pneumoniae D39

49.007

99.78

0.489
  radA Streptococcus pneumoniae R6

49.007

99.78

0.489
  radA Streptococcus pneumoniae TIGR4

49.007

99.78

0.489
  radA Streptococcus mitis SK321

49.007

99.78

0.489
  radA Streptococcus mitis NCTC 12261

49.007

99.78

0.489

Multiple sequence alignment