Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   NQZ84_RS09800 Genome accession   NZ_CP102094
Coordinates   2025990..2027357 (-) Length   455 a.a.
NCBI ID   WP_024377772.1    Uniprot ID   -
Organism   Streptococcus suis strain 12RC1     
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)
Genomic island 1995656..2028347 2025990..2027357 within 0


Gene organization within MGE regions


Location: 1995656..2028347
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NQZ84_RS09655 (NQZ84_09655) rsmA 1995656..1996528 (-) 873 WP_014736465.1 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA -
  NQZ84_RS09660 (NQZ84_09660) - 1996549..1997079 (-) 531 WP_257047753.1 DUF1697 domain-containing protein -
  NQZ84_RS09665 (NQZ84_09665) - 1997093..1997350 (-) 258 WP_024383250.1 Txe/YoeB family addiction module toxin -
  NQZ84_RS09670 (NQZ84_09670) - 1997352..1997612 (-) 261 WP_029693536.1 type II toxin-antitoxin system Phd/YefM family antitoxin -
  NQZ84_RS10730 - 1997885..1997941 (+) 57 WP_398582981.1 hypothetical protein -
  NQZ84_RS09675 (NQZ84_09675) - 1998127..1998582 (-) 456 WP_044769048.1 8-oxo-dGTP diphosphatase -
  NQZ84_RS09680 (NQZ84_09680) - 1998586..1998954 (-) 369 WP_044769046.1 hypothetical protein -
  NQZ84_RS09685 (NQZ84_09685) rnmV 1998947..1999537 (-) 591 WP_061845168.1 ribonuclease M5 -
  NQZ84_RS09690 (NQZ84_09690) - 1999500..2000282 (-) 783 WP_079397312.1 TatD family hydrolase -
  NQZ84_RS09695 (NQZ84_09695) rpmH 2000390..2000527 (-) 138 WP_002939016.1 50S ribosomal protein L34 -
  NQZ84_RS09700 (NQZ84_09700) jag 2000695..2001690 (-) 996 WP_013730624.1 RNA-binding cell elongation regulator Jag/EloR -
  NQZ84_RS09705 (NQZ84_09705) - 2001710..2002522 (-) 813 WP_024395757.1 YidC/Oxa1 family membrane protein insertase -
  NQZ84_RS09710 (NQZ84_09710) rnpA 2002506..2002865 (-) 360 WP_044674715.1 ribonuclease P protein component -
  NQZ84_RS09715 (NQZ84_09715) argH 2002936..2004330 (-) 1395 WP_044676894.1 argininosuccinate lyase -
  NQZ84_RS09720 (NQZ84_09720) - 2004344..2005537 (-) 1194 WP_044676893.1 argininosuccinate synthase -
  NQZ84_RS09725 (NQZ84_09725) - 2005730..2006278 (-) 549 WP_044676892.1 hypothetical protein -
  NQZ84_RS09730 (NQZ84_09730) - 2006348..2006875 (-) 528 WP_044674712.1 transcription repressor NadR -
  NQZ84_RS09735 (NQZ84_09735) - 2006981..2007856 (-) 876 WP_044674711.1 VOC family protein -
  NQZ84_RS09740 (NQZ84_09740) - 2007977..2008477 (+) 501 WP_044676891.1 NUDIX hydrolase -
  NQZ84_RS09745 (NQZ84_09745) mmuM 2008527..2009474 (-) 948 WP_044676890.1 homocysteine S-methyltransferase -
  NQZ84_RS09750 (NQZ84_09750) - 2009486..2010862 (-) 1377 WP_024388525.1 amino acid permease -
  NQZ84_RS09755 (NQZ84_09755) - 2011065..2012036 (-) 972 WP_257047734.1 hypothetical protein -
  NQZ84_RS09760 (NQZ84_09760) - 2012040..2014124 (-) 2085 WP_257047732.1 AAA family ATPase -
  NQZ84_RS09765 (NQZ84_09765) gltX 2014237..2015691 (-) 1455 WP_257047730.1 glutamate--tRNA ligase -
  NQZ84_RS09770 (NQZ84_09770) - 2015869..2017149 (-) 1281 WP_044685604.1 MFS transporter -
  NQZ84_RS09775 (NQZ84_09775) - 2017241..2017900 (-) 660 WP_044676886.1 LiaF transmembrane domain-containing protein -
  NQZ84_RS09780 (NQZ84_09780) - 2017905..2018351 (-) 447 WP_012775372.1 LytTR family DNA-binding domain-containing protein -
  NQZ84_RS10630 - 2018491..2018682 (-) 192 WP_024411142.1 LPXTG cell wall anchor domain-containing protein -
  NQZ84_RS10635 - 2018729..2022679 (+) 3951 WP_276538244.1 hypothetical protein -
  NQZ84_RS10640 - 2024062..2024142 (-) 81 Protein_1897 hypothetical protein -
  NQZ84_RS09790 (NQZ84_09790) - 2024405..2025163 (-) 759 WP_024386084.1 TIGR00266 family protein -
  NQZ84_RS09795 (NQZ84_09795) - 2025372..2025866 (-) 495 WP_024403073.1 beta-class carbonic anhydrase -
  NQZ84_RS09800 (NQZ84_09800) radA 2025990..2027357 (-) 1368 WP_024377772.1 DNA repair protein RadA Machinery gene
  NQZ84_RS09805 (NQZ84_09805) - 2027364..2027897 (-) 534 WP_257047723.1 histidine phosphatase family protein -
  NQZ84_RS09810 (NQZ84_09810) - 2027904..2028347 (-) 444 WP_257047722.1 dUTP diphosphatase -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 49845.30 Da        Isoelectric Point: 6.1911

>NTDB_id=714323 NQZ84_RS09800 WP_024377772.1 2025990..2027357(-) (radA) [Streptococcus suis strain 12RC1]
MTIAKKKTTFVCQSCEYHSPKYLGRCPNCGSWSSFVEEVEVAEVKNERVSLTGEKTRPMKLNEVSSIQVARTKTNMEEFN
RVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSTIGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSIRTE
IEKIKPDFLIIDSIQTIMSPDISSVQGSVSQVREVTNELMQIAKTNNIATFIVGHMTKEGTLAGPRTLEHMVDTVLYFEG
ERQHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVLNPSEVFLEERLDGATGSAIVVTMEGTRPILAEVQALVTPTMFGN
AKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVALASSYKDKPTNPQECFIGEIGLTGE
IRRVNRIEQRINEAAKLGFTKVYAPKNSLTGIKVPKEITVVGVTTIGEVLQKVFN

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=714323 NQZ84_RS09800 WP_024377772.1 2025990..2027357(-) (radA) [Streptococcus suis strain 12RC1]
ATGACCATCGCTAAGAAAAAAACAACCTTTGTCTGTCAATCCTGCGAGTACCACTCGCCCAAGTATCTGGGTCGTTGCCC
CAACTGTGGCTCCTGGTCTAGCTTTGTCGAGGAAGTGGAAGTTGCGGAAGTCAAAAATGAGCGGGTCAGCCTGACAGGTG
AGAAAACCCGACCTATGAAGCTCAATGAAGTGTCGTCCATTCAAGTGGCCCGCACTAAGACCAATATGGAGGAGTTTAAC
CGCGTCTTAGGTGGTGGAGTGGTGCCGGGCAGTCTGGTCCTGATCGGAGGCGATCCAGGGATTGGTAAGTCTACCTTGCT
CCTGCAAGTATCCACTCAGCTGTCTACCATTGGCACCGTCCTCTATGTGTCGGGGGAAGAGTCTGCCCAGCAGATTAAGC
TCCGTGCCGAGCGTTTGGGCGACATCGACAGCGAGTTCTATCTCTATGCGGAGACCAATATGCAGAGCATTCGGACTGAG
ATTGAGAAAATTAAGCCAGATTTCCTGATTATCGACTCTATCCAGACCATCATGAGCCCTGACATCTCCAGCGTGCAAGG
CTCTGTCAGTCAGGTCCGTGAAGTGACCAATGAACTCATGCAGATTGCCAAGACCAACAATATCGCAACCTTTATCGTCG
GCCACATGACCAAGGAAGGTACTCTGGCTGGACCTCGGACCTTGGAGCATATGGTAGACACCGTTCTTTATTTTGAGGGC
GAGCGGCAGCACACCTTCCGTATCTTGCGGGCGGTCAAAAACCGTTTCGGTTCTACCAACGAAATCGGCATTTTTGAAAT
GCAGTCGCAGGGTTTGGTCGAAGTCCTCAATCCTAGTGAGGTCTTTCTGGAAGAGCGTTTGGACGGGGCGACAGGCTCTG
CTATTGTCGTGACCATGGAGGGCACCCGCCCTATCCTTGCCGAAGTGCAGGCTCTGGTGACGCCGACCATGTTTGGCAAT
GCCAAGCGGACCACGACAGGCTTGGACTTCAACCGTGCCAGCTTGATTATGGCAGTTTTGGAAAAACGGGCCGGTCTGCT
CCTCCAAAACCAAGATGCCTACCTTAAGTCAGCAGGCGGTGTCAAACTGGATGAGCCAGCTATTGACCTAGCGGTCGCAG
TTGCCCTTGCCTCCAGTTACAAGGACAAGCCAACCAACCCACAAGAGTGCTTTATAGGCGAAATCGGTCTGACAGGGGAA
ATCCGACGCGTCAATCGGATTGAACAACGGATTAACGAAGCCGCCAAACTAGGCTTTACCAAGGTCTATGCCCCTAAAAA
TTCCCTGACAGGTATCAAGGTACCAAAGGAAATCACTGTTGTCGGCGTGACCACCATTGGCGAAGTCTTACAGAAAGTAT
TCAACTGA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(10-37)

AAA domain (AAA_25)

(64-220)

Subunit ChlI of Mg-chelatase (ChlI)

(363-427)


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 Rx1

90.929

99.341

0.903
  radA Streptococcus pneumoniae D39

90.929

99.341

0.903
  radA Streptococcus pneumoniae R6

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