Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   RJW54_RS10375 Genome accession   NZ_CP134487
Coordinates   2082664..2084034 (-) Length   456 a.a.
NCBI ID   WP_004298358.1    Uniprot ID   A0A126UJP8
Organism   Streptococcus suis strain MY1C3_3B     
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 2084581..2107578 2082664..2084034 flank 547


Gene organization within MGE regions


Location: 2082664..2107578
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJW54_RS10375 (RJW54_10355) radA 2082664..2084034 (-) 1371 WP_004298358.1 DNA repair protein RadA Machinery gene
  RJW54_RS10380 (RJW54_10360) - 2084041..2084574 (-) 534 WP_004298356.1 histidine phosphatase family protein -
  RJW54_RS10385 (RJW54_10365) - 2084581..2085024 (-) 444 WP_004298354.1 dUTP diphosphatase -
  RJW54_RS10390 (RJW54_10370) - 2085123..2086268 (-) 1146 WP_172015557.1 site-specific integrase -
  RJW54_RS10395 (RJW54_10375) - 2087115..2087699 (-) 585 WP_002938233.1 helix-turn-helix transcriptional regulator -
  RJW54_RS10400 (RJW54_10380) - 2087862..2088059 (+) 198 WP_029175175.1 helix-turn-helix transcriptional regulator -
  RJW54_RS10405 (RJW54_10385) - 2088093..2088272 (+) 180 WP_172015288.1 hypothetical protein -
  RJW54_RS10410 (RJW54_10390) - 2088771..2089121 (+) 351 WP_238144174.1 hypothetical protein -
  RJW54_RS10415 (RJW54_10395) - 2089109..2089312 (+) 204 WP_013730686.1 hypothetical protein -
  RJW54_RS10420 (RJW54_10400) - 2089324..2089473 (+) 150 WP_013730685.1 hypothetical protein -
  RJW54_RS10425 (RJW54_10405) - 2089470..2089808 (+) 339 WP_013730684.1 hypothetical protein -
  RJW54_RS10430 (RJW54_10410) - 2089798..2090073 (+) 276 WP_172015607.1 XRE family transcriptional regulator -
  RJW54_RS10435 (RJW54_10415) - 2090230..2091108 (+) 879 WP_024394566.1 primase alpha helix C-terminal domain-containing protein -
  RJW54_RS10440 (RJW54_10420) - 2091126..2092598 (+) 1473 WP_024394565.1 phage/plasmid primase, P4 family -
  RJW54_RS10445 (RJW54_10425) - 2092910..2093083 (+) 174 WP_162841090.1 hypothetical protein -
  RJW54_RS10450 (RJW54_10430) - 2093104..2093679 (+) 576 WP_024394564.1 hypothetical protein -
  RJW54_RS10455 (RJW54_10435) - 2093729..2094130 (+) 402 WP_024394563.1 hypothetical protein -
  RJW54_RS10460 (RJW54_10440) - 2094182..2094685 (+) 504 WP_024394562.1 hypothetical protein -
  RJW54_RS10465 (RJW54_10445) - 2094816..2095235 (+) 420 WP_024394561.1 hypothetical protein -
  RJW54_RS10470 (RJW54_10450) - 2095294..2095605 (+) 312 WP_153055172.1 DUF1492 domain-containing protein -
  RJW54_RS10475 (RJW54_10455) - 2096132..2097916 (-) 1785 WP_024394879.1 ABC transporter ATP-binding protein -
  RJW54_RS10480 (RJW54_10460) - 2097917..2099623 (-) 1707 WP_172015605.1 ABC transporter ATP-binding protein -
  RJW54_RS10485 (RJW54_10465) - 2099616..2100065 (-) 450 WP_024414076.1 MarR family winged helix-turn-helix transcriptional regulator -
  RJW54_RS10490 (RJW54_10470) - 2100287..2101303 (+) 1017 WP_012027922.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -
  RJW54_RS10495 (RJW54_10475) galU 2101348..2102247 (+) 900 WP_044685600.1 UTP--glucose-1-phosphate uridylyltransferase GalU -
  RJW54_RS10500 (RJW54_10480) - 2102265..2102942 (-) 678 WP_044772765.1 rhomboid family intramembrane serine protease -
  RJW54_RS10505 (RJW54_10485) - 2102926..2103468 (-) 543 WP_044772764.1 5-formyltetrahydrofolate cyclo-ligase -
  RJW54_RS10510 (RJW54_10490) - 2103509..2104636 (-) 1128 WP_172015606.1 N-acetyldiaminopimelate deacetylase -
  RJW54_RS10515 (RJW54_10495) dapD 2104646..2105344 (-) 699 WP_024376132.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase -
  RJW54_RS10520 (RJW54_10500) - 2105420..2106160 (-) 741 WP_024387356.1 metallophosphoesterase -
  RJW54_RS10525 (RJW54_10505) - 2106322..2107578 (+) 1257 WP_397640630.1 ISL3 family transposase -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 50002.51 Da        Isoelectric Point: 6.1911

>NTDB_id=880289 RJW54_RS10375 WP_004298358.1 2082664..2084034(-) (radA) [Streptococcus suis strain MY1C3_3B]
MTIAKKKTTFVCQSCEYHSPKYLGRCPNCGSWSSFVEEVEVAEVKNERVSLTGEKTRPMKLNEVSSIQVARTKTNMEEFN
RVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSTIGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSIRTE
IEKIKPDFLIIDSIQTIMSPDISSVQGSVSQVREVTNELMQIAKTNNIATFIVGHMTKEGTLAGPRTLEHMVDTVLYFEG
ERQHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVLNPSEVFLEERLDGATGSAIVVTMEGTRPILAEVQALVTPTMFGN
AKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVALASSYKDKPTNPQECFIGEIGLTGE
IRRVNRIEQRINEAAKLGFTKVYAPKNSLTGIKVPKEITVISVTTIGEVLQKVFNL

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=880289 RJW54_RS10375 WP_004298358.1 2082664..2084034(-) (radA) [Streptococcus suis strain MY1C3_3B]
ATGACCATCGCTAAGAAAAAAACAACCTTTGTCTGTCAATCCTGCGAGTACCACTCGCCCAAGTATCTGGGCCGTTGCCC
CAACTGTGGCTCCTGGTCTAGCTTTGTCGAGGAAGTGGAAGTCGCTGAAGTCAAGAACGAGCGGGTCAGTCTGACAGGTG
AGAAGACCCGTCCTATGAAGCTCAATGAAGTGTCGTCCATTCAAGTGGCCCGCACCAAGACCAATATGGAAGAGTTTAAC
CGTGTCCTTGGTGGCGGCGTGGTGCCGGGCAGTCTGGTCCTGATTGGAGGCGATCCAGGGATTGGCAAATCGACCTTGCT
CCTGCAAGTATCGACCCAACTTTCGACTATTGGCACCGTCCTCTATGTGTCGGGGGAAGAGTCTGCCCAGCAGATTAAGT
TGCGAGCGGAGCGTTTGGGCGACATTGACAGCGAGTTCTATCTCTATGCGGAGACCAATATGCAGAGCATTCGGACTGAG
ATTGAGAAAATCAAGCCAGATTTCCTGATTATCGACTCTATCCAGACCATTATGAGCCCTGACATTTCTAGCGTGCAAGG
TTCTGTCAGTCAGGTCCGTGAAGTGACCAATGAGCTTATGCAGATTGCCAAGACCAACAATATCGCAACCTTTATCGTCG
GCCACATGACCAAGGAAGGCACCCTGGCTGGACCGCGGACCTTGGAGCACATGGTAGACACCGTTCTCTATTTTGAGGGC
GAGCGTCAACACACCTTCCGTATCTTGAGGGCGGTCAAAAATCGCTTTGGCTCCACCAACGAAATCGGTATTTTTGAAAT
GCAGTCGCAGGGCTTGGTCGAAGTTCTCAATCCAAGTGAGGTCTTTCTGGAAGAGCGTCTGGACGGAGCGACTGGCTCGG
CTATTGTCGTGACCATGGAGGGCACCCGCCCTATCCTTGCCGAAGTGCAGGCTCTGGTGACCCCGACCATGTTTGGCAAT
GCCAAGCGGACCACGACAGGCTTGGATTTCAACCGTGCCAGCTTGATTATGGCGGTTTTGGAAAAACGGGCCGGTCTGCT
CCTCCAAAACCAAGATGCCTACCTTAAGTCAGCAGGCGGTGTCAAACTGGATGAGCCAGCTATTGACCTAGCGGTCGCAG
TTGCCCTTGCCTCCAGTTACAAGGACAAGCCAACCAACCCACAAGAGTGCTTTATAGGCGAGATTGGCCTGACAGGGGAA
ATCCGCCGCGTCAATCGGATTGAACAACGGATTAACGAAGCCGCCAAATTGGGCTTTACCAAGGTCTATGCCCCAAAAAA
TTCCCTGACAGGTATCAAGGTGCCCAAGGAAATCACCGTTATCAGCGTGACCACCATTGGCGAAGTCTTGCAGAAAGTAT
TCAACTTATGA

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
  AlphaFold DB A0A126UJP8

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

99.123

0.904
  radA Streptococcus pneumoniae D39

90.929

99.123

0.901
  radA Streptococcus pneumoniae R6

90.929

99.123

0.901
  radA Streptococcus pneumoniae Rx1

90.929

99.123

0.901
  radA Streptococcus pneumoniae TIGR4

90.929

99.123

0.901
  radA Streptococcus mitis SK321

90.708

99.123

0.899
  radA Bacillus subtilis subsp. subtilis str. 168

62.472

99.342

0.621