Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DK877_RS10225 Genome accession   NZ_CP030023
Coordinates   2058643..2060013 (-) Length   456 a.a.
NCBI ID   WP_004298358.1    Uniprot ID   A0A126UJP8
Organism   Streptococcus suis strain ISU2414     
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 2060560..2082227 2058643..2060013 flank 547


Gene organization within MGE regions


Location: 2058643..2082227
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DK877_RS10225 (DK877_10535) radA 2058643..2060013 (-) 1371 WP_004298358.1 DNA repair protein RadA Machinery gene
  DK877_RS10230 (DK877_10540) - 2060020..2060553 (-) 534 WP_004298356.1 histidine phosphatase family protein -
  DK877_RS10235 (DK877_10545) - 2060560..2061003 (-) 444 WP_004298354.1 dUTP diphosphatase -
  DK877_RS10240 (DK877_10550) - 2061101..2062246 (-) 1146 WP_044666645.1 site-specific integrase -
  DK877_RS10245 (DK877_10555) - 2062417..2063247 (-) 831 WP_013730692.1 KilA-N domain-containing protein -
  DK877_RS10250 (DK877_10560) - 2063610..2064194 (-) 585 WP_044674473.1 helix-turn-helix domain-containing protein -
  DK877_RS10255 (DK877_10565) - 2064401..2064601 (+) 201 WP_044666638.1 helix-turn-helix transcriptional regulator -
  DK877_RS10260 (DK877_10570) - 2065098..2065526 (+) 429 WP_044674475.1 hypothetical protein -
  DK877_RS10265 (DK877_10580) - 2065734..2065919 (+) 186 WP_044686673.1 hypothetical protein -
  DK877_RS10270 (DK877_10585) - 2065916..2066251 (+) 336 WP_044674480.1 hypothetical protein -
  DK877_RS10275 (DK877_10590) - 2066244..2066525 (+) 282 WP_044674482.1 hypothetical protein -
  DK877_RS10280 (DK877_10595) - 2066512..2067330 (+) 819 WP_044674484.1 phage replisome organizer N-terminal domain-containing protein -
  DK877_RS10285 (DK877_10600) - 2067345..2068205 (+) 861 WP_024417153.1 ATP-binding protein -
  DK877_RS10290 (DK877_10605) - 2068202..2068660 (+) 459 WP_024417152.1 hypothetical protein -
  DK877_RS10295 (DK877_10610) - 2068720..2069121 (+) 402 WP_024417151.1 hypothetical protein -
  DK877_RS11255 (DK877_10615) - 2069173..2069676 (+) 504 WP_024417150.1 hypothetical protein -
  DK877_RS10300 (DK877_10620) - 2070067..2070498 (+) 432 WP_024417149.1 DUF1492 domain-containing protein -
  DK877_RS10305 (DK877_10625) - 2071279..2073063 (-) 1785 WP_004298352.1 ABC transporter ATP-binding protein -
  DK877_RS10310 (DK877_10630) - 2073064..2074770 (-) 1707 WP_004298350.1 ABC transporter ATP-binding protein -
  DK877_RS10315 (DK877_10635) - 2074763..2075212 (-) 450 WP_004298348.1 MarR family winged helix-turn-helix transcriptional regulator -
  DK877_RS10320 (DK877_10640) - 2075434..2076450 (+) 1017 WP_004298347.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -
  DK877_RS10325 (DK877_10645) galU 2076496..2077395 (+) 900 WP_004298345.1 UTP--glucose-1-phosphate uridylyltransferase GalU -
  DK877_RS10330 (DK877_10650) - 2077414..2078091 (-) 678 WP_004298343.1 rhomboid family intramembrane serine protease -
  DK877_RS10335 (DK877_10655) - 2078075..2078617 (-) 543 WP_004298341.1 5-formyltetrahydrofolate cyclo-ligase -
  DK877_RS10340 (DK877_10660) - 2078659..2079786 (-) 1128 WP_013730633.1 N-acetyldiaminopimelate deacetylase -
  DK877_RS10345 (DK877_10665) dapD 2079796..2080494 (-) 699 WP_013730634.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase -
  DK877_RS10350 (DK877_10670) - 2080651..2081184 (-) 534 WP_013730635.1 hypothetical protein -
  DK877_RS10355 (DK877_10675) - 2081499..2082227 (-) 729 WP_013730636.1 metallophosphoesterase -

Sequence

Protein


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

>NTDB_id=298503 DK877_RS10225 WP_004298358.1 2058643..2060013(-) (radA) [Streptococcus suis strain ISU2414]
MTIAKKKTTFVCQSCEYHSPKYLGRCPNCGSWSSFVEEVEVAEVKNERVSLTGEKTRPMKLNEVSSIQVARTKTNMEEFN
RVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSTIGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSIRTE
IEKIKPDFLIIDSIQTIMSPDISSVQGSVSQVREVTNELMQIAKTNNIATFIVGHMTKEGTLAGPRTLEHMVDTVLYFEG
ERQHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVLNPSEVFLEERLDGATGSAIVVTMEGTRPILAEVQALVTPTMFGN
AKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVALASSYKDKPTNPQECFIGEIGLTGE
IRRVNRIEQRINEAAKLGFTKVYAPKNSLTGIKVPKEITVISVTTIGEVLQKVFNL

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=298503 DK877_RS10225 WP_004298358.1 2058643..2060013(-) (radA) [Streptococcus suis strain ISU2414]
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

Multiple sequence alignment