Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   RMP64_RS09990 Genome accession   NZ_CP135093
Coordinates   2047110..2048480 (-) Length   456 a.a.
NCBI ID   WP_004298358.1    Uniprot ID   A0A126UJP8
Organism   Streptococcus suis strain 1652329     
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 2049027..2073545 2047110..2048480 flank 547


Gene organization within MGE regions


Location: 2047110..2073545
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RMP64_RS09990 (RMP64_09990) radA 2047110..2048480 (-) 1371 WP_004298358.1 DNA repair protein RadA Machinery gene
  RMP64_RS09995 (RMP64_09995) - 2048487..2049020 (-) 534 WP_004298356.1 histidine phosphatase family protein -
  RMP64_RS10000 (RMP64_10000) - 2049027..2049470 (-) 444 WP_004298354.1 dUTP diphosphatase -
  RMP64_RS10005 (RMP64_10005) - 2049569..2050714 (-) 1146 WP_087013592.1 site-specific integrase -
  RMP64_RS10010 (RMP64_10010) - 2051561..2052145 (-) 585 WP_002938233.1 helix-turn-helix transcriptional regulator -
  RMP64_RS10015 (RMP64_10015) - 2052307..2052504 (+) 198 WP_087013596.1 helix-turn-helix transcriptional regulator -
  RMP64_RS10020 (RMP64_10020) - 2052523..2053266 (+) 744 WP_238712477.1 BRO family protein -
  RMP64_RS10025 (RMP64_10025) - 2053270..2053896 (+) 627 WP_087013601.1 Rha family transcriptional regulator -
  RMP64_RS10030 (RMP64_10030) - 2054346..2054747 (+) 402 WP_087013604.1 hypothetical protein -
  RMP64_RS10035 (RMP64_10035) - 2054735..2054938 (+) 204 WP_029188904.1 hypothetical protein -
  RMP64_RS10040 (RMP64_10040) - 2054949..2055095 (+) 147 WP_165757798.1 hypothetical protein -
  RMP64_RS10045 (RMP64_10045) - 2055092..2055430 (+) 339 WP_087013607.1 hypothetical protein -
  RMP64_RS10050 (RMP64_10050) - 2055420..2055704 (+) 285 WP_087013609.1 transcriptional regulator -
  RMP64_RS10055 (RMP64_10055) - 2055927..2056799 (+) 873 WP_087013612.1 primase alpha helix C-terminal domain-containing protein -
  RMP64_RS10060 (RMP64_10060) - 2056853..2058289 (+) 1437 WP_044752412.1 phage/plasmid primase, P4 family -
  RMP64_RS10065 (RMP64_10065) - 2058601..2058774 (+) 174 WP_087013616.1 hypothetical protein -
  RMP64_RS10070 (RMP64_10070) - 2058795..2059370 (+) 576 WP_044752411.1 hypothetical protein -
  RMP64_RS10075 (RMP64_10075) - 2059418..2059819 (+) 402 WP_044752415.1 hypothetical protein -
  RMP64_RS10080 (RMP64_10080) - 2059861..2060364 (+) 504 WP_044752408.1 hypothetical protein -
  RMP64_RS10085 (RMP64_10085) - 2060781..2061200 (+) 420 WP_044752435.1 hypothetical protein -
  RMP64_RS10090 (RMP64_10090) - 2061157..2061552 (+) 396 WP_044752434.1 ArpU family phage packaging/lysis transcriptional regulator -
  RMP64_RS10095 (RMP64_10095) - 2062099..2063883 (-) 1785 WP_024394879.1 ABC transporter ATP-binding protein -
  RMP64_RS10100 (RMP64_10100) - 2063884..2065590 (-) 1707 WP_024394878.1 ABC transporter ATP-binding protein -
  RMP64_RS10105 (RMP64_10105) - 2065583..2066032 (-) 450 WP_024387360.1 MarR family winged helix-turn-helix transcriptional regulator -
  RMP64_RS10110 (RMP64_10110) - 2066254..2067270 (+) 1017 WP_012027922.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -
  RMP64_RS10115 (RMP64_10115) galU 2067315..2068214 (+) 900 WP_004298345.1 UTP--glucose-1-phosphate uridylyltransferase GalU -
  RMP64_RS10120 (RMP64_10120) - 2068232..2068909 (-) 678 WP_024387359.1 rhomboid family intramembrane serine protease -
  RMP64_RS10125 (RMP64_10125) - 2068893..2069435 (-) 543 WP_024387358.1 5-formyltetrahydrofolate cyclo-ligase -
  RMP64_RS10130 (RMP64_10130) - 2069476..2070603 (-) 1128 WP_024394877.1 N-acetyldiaminopimelate deacetylase -
  RMP64_RS10135 (RMP64_10135) dapD 2070613..2071311 (-) 699 WP_024376132.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase -
  RMP64_RS10140 (RMP64_10140) - 2071387..2072127 (-) 741 WP_024387356.1 metallophosphoesterase -
  RMP64_RS10145 (RMP64_10145) - 2072289..2073545 (+) 1257 WP_172051344.1 ISL3 family transposase -

Sequence

Protein


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

>NTDB_id=885057 RMP64_RS09990 WP_004298358.1 2047110..2048480(-) (radA) [Streptococcus suis strain 1652329]
MTIAKKKTTFVCQSCEYHSPKYLGRCPNCGSWSSFVEEVEVAEVKNERVSLTGEKTRPMKLNEVSSIQVARTKTNMEEFN
RVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSTIGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSIRTE
IEKIKPDFLIIDSIQTIMSPDISSVQGSVSQVREVTNELMQIAKTNNIATFIVGHMTKEGTLAGPRTLEHMVDTVLYFEG
ERQHTFRILRAVKNRFGSTNEIGIFEMQSQGLVEVLNPSEVFLEERLDGATGSAIVVTMEGTRPILAEVQALVTPTMFGN
AKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVALASSYKDKPTNPQECFIGEIGLTGE
IRRVNRIEQRINEAAKLGFTKVYAPKNSLTGIKVPKEITVISVTTIGEVLQKVFNL

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=885057 RMP64_RS09990 WP_004298358.1 2047110..2048480(-) (radA) [Streptococcus suis strain 1652329]
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