Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   R5H38_RS00690 Genome accession   NZ_CP137602
Coordinates   129728..131095 (+) Length   455 a.a.
NCBI ID   WP_277837413.1    Uniprot ID   -
Organism   Streptococcus parasuis strain 221006     
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 129902..158069 129728..131095 flank -1193


Gene organization within MGE regions


Location: 129728..158069
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R5H38_RS00690 radA 129728..131095 (+) 1368 WP_277837413.1 DNA repair protein RadA Machinery gene
  R5H38_RS00695 - 131219..131713 (+) 495 WP_024391588.1 beta-class carbonic anhydrase -
  R5H38_RS00700 - 131913..132671 (+) 759 WP_217374528.1 TIGR00266 family protein -
  R5H38_RS00705 - 132842..132967 (+) 126 WP_318150707.1 hypothetical protein -
  R5H38_RS00710 - 132954..133325 (+) 372 WP_318150708.1 hypothetical protein -
  R5H38_RS00715 gltX 133715..135169 (+) 1455 WP_289646130.1 glutamate--tRNA ligase -
  R5H38_RS00720 - 135308..136684 (+) 1377 WP_277837280.1 amino acid permease -
  R5H38_RS00725 mmuM 136697..137644 (+) 948 WP_289646129.1 homocysteine S-methyltransferase -
  R5H38_RS00730 - 137681..138043 (-) 363 WP_318150709.1 MerR family transcriptional regulator -
  R5H38_RS00735 - 138296..138883 (-) 588 WP_412080662.1 NUDIX hydrolase -
  R5H38_RS00740 - 139005..139880 (+) 876 WP_318151001.1 VOC family protein -
  R5H38_RS00745 - 139984..140511 (+) 528 WP_024397302.1 transcription repressor NadR -
  R5H38_RS00750 - 140582..141130 (+) 549 WP_024403818.1 hypothetical protein -
  R5H38_RS00755 - 141321..142514 (+) 1194 WP_217374534.1 argininosuccinate synthase -
  R5H38_RS00760 argH 142528..143922 (+) 1395 WP_274504471.1 argininosuccinate lyase -
  R5H38_RS00765 rnpA 143993..144352 (+) 360 WP_024391601.1 ribonuclease P protein component -
  R5H38_RS00770 - 144336..145148 (+) 813 WP_217374536.1 YidC/Oxa1 family membrane protein insertase -
  R5H38_RS00775 jag 145167..146171 (+) 1005 WP_172036507.1 RNA-binding cell elongation regulator Jag/EloR -
  R5H38_RS00780 rpmH 146392..146529 (+) 138 WP_049618373.1 50S ribosomal protein L34 -
  R5H38_RS00785 - 146579..147460 (-) 882 WP_318150710.1 diacylglycerol kinase family lipid kinase -
  R5H38_RS00790 - 147610..148392 (+) 783 WP_289646117.1 TatD family hydrolase -
  R5H38_RS00795 rnmV 148376..148942 (+) 567 WP_274504473.1 ribonuclease M5 -
  R5H38_RS00800 - 148971..149221 (+) 251 Protein_136 8-oxo-dGTP diphosphatase -
  R5H38_RS00805 rsmA 149260..150135 (+) 876 WP_318150711.1 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase RsmA -
  R5H38_RS00810 - 150132..150368 (+) 237 WP_318150712.1 hypothetical protein -
  R5H38_RS00815 - 150498..151043 (-) 546 WP_274504475.1 cysteine hydrolase family protein -
  R5H38_RS00820 - 151635..153371 (+) 1737 WP_318150713.1 hypothetical protein -
  R5H38_RS00830 rsgA 153725..154600 (+) 876 WP_172036513.1 ribosome small subunit-dependent GTPase A -
  R5H38_RS00835 rpe 154615..155274 (+) 660 WP_130554196.1 ribulose-phosphate 3-epimerase -
  R5H38_RS00840 - 155267..155899 (+) 633 WP_172041248.1 thiamine diphosphokinase -
  R5H38_RS00845 - 155900..157138 (+) 1239 WP_318150714.1 DNA recombination protein RmuC -
  R5H38_RS00850 - 157128..158069 (+) 942 WP_318150715.1 3'-5' exoribonuclease YhaM family protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 49870.35 Da        Isoelectric Point: 6.1911

>NTDB_id=899216 R5H38_RS00690 WP_277837413.1 129728..131095(+) (radA) [Streptococcus parasuis strain 221006]
MIIAKKKTTFVCQNCEYHSPKYLGRCPNCGSWSSFVEEVEVAEVKNERVSLTGEKTRPMKLNEVSSIQVARTKTNMEEFN
RVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSTIGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSIRTE
IEKIKPDFLIIDSIQTVMSPDISSVQGSVSQVREVTNELMQIAKTNNIATFIVGHMTKEGTLAGPRTLEHMVDTVLYFEG
ERQHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVLNPSEVFLEERLDGATGSAIVVTMEGTRPILAEVQALVTPSMFGN
AKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVALASSYKDKPTNPQECFIGEIGLTGE
IRRVNRIEQRINEAAKLGFTKVYAPKNSLTGIKVPKEITVIGVTTIGEVLQKVFN

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=899216 R5H38_RS00690 WP_277837413.1 129728..131095(+) (radA) [Streptococcus parasuis strain 221006]
ATCATCATCGCTAAGAAAAAAACAACCTTTGTCTGCCAAAATTGTGAATACCATTCGCCCAAGTATCTGGGCCGTTGCCC
CAACTGTGGCTCCTGGTCTAGCTTTGTCGAGGAAGTTGAAGTCGCTGAAGTCAAGAACGAGCGGGTTAGCCTGACAGGTG
AGAAGACCCGTCCCATGAAACTCAATGAAGTTTCCTCCATTCAAGTGGCTCGCACCAAGACCAACATGGAGGAGTTCAAC
CGTGTCCTCGGTGGCGGTGTGGTGCCAGGGAGTCTGGTCCTGATCGGAGGCGATCCAGGAATTGGCAAATCCACCCTACT
CTTGCAGGTTTCTACCCAGCTTTCGACCATTGGTACCGTCCTCTATGTGTCCGGGGAAGAGTCTGCCCAGCAGATTAAGT
TGCGGGCGGAGCGTTTGGGCGACATCGACAGCGAGTTCTATCTCTATGCGGAGACCAATATGCAGAGCATTCGGACCGAG
ATTGAGAAGATTAAGCCAGATTTCCTGATTATCGATTCTATCCAGACCGTTATGAGCCCTGACATCTCCAGCGTGCAAGG
CTCTGTCAGTCAGGTCCGTGAAGTGACCAATGAACTCATGCAAATTGCCAAGACCAACAACATCGCAACCTTTATCGTCG
GTCACATGACCAAGGAAGGAACCCTGGCTGGACCTCGGACTTTGGAGCATATGGTAGACACCGTTCTTTATTTTGAAGGC
GAGCGGCAGCATACCTTTCGTATCTTGCGGGCGGTCAAAAACCGCTTTGGCTCTACCAATGAAATCGGCATTTTTGAAAT
GCAGTCACAGGGTTTGGTCGAAGTCCTCAATCCTAGTGAGGTCTTTCTGGAAGAGCGTTTGGACGGGGCGACAGGCTCTG
CTATTGTAGTGACCATGGAGGGCACCCGCCCTATCCTTGCCGAAGTGCAGGCTCTGGTGACCCCGAGCATGTTTGGCAAT
GCCAAGCGGACCACGACAGGCTTGGACTTCAACCGTGCCAGCTTGATTATGGCGGTTTTGGAAAAACGGGCAGGCCTGCT
CCTCCAAAACCAAGATGCCTACCTTAAGTCAGCTGGCGGTGTCAAACTGGATGAGCCAGCTATTGACCTGGCGGTCGCAG
TTGCCCTTGCCTCCAGTTACAAAGATAAGCCAACCAACCCACAAGAGTGTTTTATAGGGGAGATTGGCCTGACAGGTGAA
ATCCGCCGTGTCAATCGGATTGAGCAACGGATTAACGAAGCCGCTAAATTGGGCTTTACCAAGGTCTATGCTCCTAAAAA
TTCCCTGACCGGTATCAAGGTGCCCAAGGAAATAACGGTTATCGGCGTGACAACAATTGGCGAAGTTCTGCAAAAAGTGT
TTAACTAA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(363-427)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(10-37)

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 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