Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   GL183_RS11025 Genome accession   NZ_CP046355
Coordinates   2149625..2150986 (-) Length   453 a.a.
NCBI ID   WP_074017595.1    Uniprot ID   A0A237IXT5
Organism   Streptococcus pneumoniae strain 475     
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 2140778..2170815 2149625..2150986 within 0


Gene organization within MGE regions


Location: 2140778..2170815
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GL183_RS10965 (GL183_11100) - 2140778..2141788 (+) 1011 WP_000009171.1 YeiH family protein -
  GL183_RS11590 - 2141807..2142202 (-) 396 WP_061826320.1 hypothetical protein -
  GL183_RS10975 (GL183_11110) - 2142243..2142680 (-) 438 WP_061633093.1 CoA-binding protein -
  GL183_RS10980 (GL183_11115) polA 2142765..2145398 (-) 2634 WP_088834530.1 DNA polymerase I -
  GL183_RS11220 - 2145654..2146561 (+) 908 Protein_2155 Rpn family recombination-promoting nuclease/putative transposase -
  GL183_RS11000 (GL183_11135) - 2146688..2146969 (+) 282 Protein_2156 ISL3 family transposase -
  GL183_RS11005 (GL183_11140) - 2147103..2148071 (-) 969 WP_000010163.1 ribose-phosphate diphosphokinase -
  GL183_RS11010 (GL183_11145) - 2148216..2149030 (-) 815 Protein_2158 PrsW family glutamic-type intramembrane protease -
  GL183_RS11020 (GL183_11150) - 2149055..2149552 (-) 498 WP_001809263.1 carbonic anhydrase -
  GL183_RS11025 (GL183_11155) radA 2149625..2150986 (-) 1362 WP_074017595.1 DNA repair protein RadA Machinery gene
  GL183_RS11030 (GL183_11160) - 2151000..2151515 (-) 516 WP_000691236.1 histidine phosphatase family protein -
  GL183_RS11035 (GL183_11165) - 2151517..2151960 (-) 444 WP_000701992.1 dUTP diphosphatase -
  GL183_RS11040 - 2152265..2152414 (+) 150 WP_001030863.1 hypothetical protein -
  GL183_RS11045 (GL183_11170) - 2152556..2152735 (+) 180 WP_001209433.1 hypothetical protein -
  GL183_RS11050 (GL183_11175) - 2152955..2153320 (-) 366 Protein_2165 autolysin -
  GL183_RS11055 (GL183_11180) - 2153340..2153507 (+) 168 WP_000024181.1 YjzC family protein -
  GL183_RS11060 (GL183_11185) - 2153662..2153865 (-) 204 WP_001247549.1 hypothetical protein -
  GL183_RS11065 (GL183_11190) - 2153888..2154079 (-) 192 WP_001112859.1 DNA-binding protein -
  GL183_RS11070 (GL183_11195) - 2154651..2155019 (+) 369 WP_000464160.1 helix-turn-helix transcriptional regulator -
  GL183_RS11075 (GL183_11200) - 2155019..2155252 (+) 234 WP_000156419.1 hypothetical protein -
  GL183_RS11080 (GL183_11205) - 2155252..2155515 (+) 264 WP_000285962.1 type II toxin-antitoxin system RelE/ParE family toxin -
  GL183_RS11085 (GL183_11210) - 2155528..2155908 (+) 381 WP_000170931.1 ImmA/IrrE family metallo-endopeptidase -
  GL183_RS11090 (GL183_11215) - 2155925..2156995 (+) 1071 WP_000401841.1 type I restriction endonuclease -
  GL183_RS11595 (GL183_11220) - 2157056..2157403 (+) 348 WP_001839379.1 hypothetical protein -
  GL183_RS11600 (GL183_11225) - 2157493..2158191 (+) 699 WP_001106362.1 site-specific integrase -
  GL183_RS11105 (GL183_11235) tadA 2158400..2158867 (-) 468 WP_000291870.1 tRNA adenosine(34) deaminase TadA -
  GL183_RS11110 (GL183_11240) - 2159068..2160354 (-) 1287 WP_000205044.1 adenylosuccinate synthase -
  GL183_RS11115 (GL183_11245) comW 2160585..2160821 (-) 237 WP_000939544.1 sigma(X)-activator ComW Regulator
  GL183_RS11120 (GL183_11250) - 2161087..2161884 (+) 798 Protein_2179 transposase -
  GL183_RS11125 (GL183_11255) - 2161919..2162765 (-) 847 Protein_2180 IS630 family transposase -
  GL183_RS11160 (GL183_11290) comX/comX2 2168256..2168735 (-) 480 WP_000588925.1 sigma-70 family RNA polymerase sigma factor Regulator
  GL183_RS11165 (GL183_11295) ftsH 2168857..2170815 (-) 1959 WP_000744557.1 ATP-dependent zinc metalloprotease FtsH -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49432.95 Da        Isoelectric Point: 6.5137

>NTDB_id=403068 GL183_RS11025 WP_074017595.1 2149625..2150986(-) (radA) [Streptococcus pneumoniae strain 475]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPKNSLTGITLPKEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=403068 GL183_RS11025 WP_074017595.1 2149625..2150986(-) (radA) [Streptococcus pneumoniae strain 475]
ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCCCCTAAATATCTGGGACGTTGCCCCAACTG
TGGGTCTTGGTCTTCTTTTGTGGAAGAGGTTGAGGTTGCCGAGGTCAAGAATGCGCGTGTGTCCTTGACAGGTGAGAAAA
CCAAGCCCATGAAACTAGCTGAGGTGACTTCCATCAATGTCAATCGAACCAAGACGGAGATGGAGGAATTCAACCGTGTG
CTTGGAGGCGGAGTGGTACCAGGAAGTCTCGTCCTCATCGGTGGGGATCCTGGGATTGGGAAATCAACTCTTCTCCTACA
AGTCTCAACCCAGTTGTCCCAAGTGGGGACAGTTCTCTATGTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAACTACGTG
CAGAGCGCTTAGGTGATATTGATAGTGAGTTTTATCTCTATGCAGAGACCAATATGCAGAGTGTTCGTGCAGAAGTGGAG
CGTATCCAGCCAGACTTTCTCATTATTGATTCCATCCAGACCATCATGTCTCCTGAGATTTCAGGGGTGCAGGGGTCTGT
TTCTCAGGTACGTGAAGTGACCGCTGAACTCATGCAGTTGGCCAAGACCAATAACATTGCCATCTTTATCGTAGGTCATG
TGACCAAAGAAGGAACCTTGGCTGGGCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
CACCACACCTTTCGTATTTTGAGAGCGGTCAAAAATCGTTTTGGTTCCACTAATGAGATTGGGATTTTTGAGATGCAGTC
GGGCGGCTTGGTTGAGGTACTCAATCCGAGTCAAGTTTTCCTAGAAGAGCGTTTGGATGGGGCGACTGGTTCCTCCATCG
TTGTAACCATGGAAGGGACGCGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
CGTACGACGACAGGACTTGATTTTAACCGTGCTAGCTTGATTATGGCTGTTTTGGAAAAACGGGCAGGGCTTCTCTTGCA
AAATCAGGATGCCTATCTCAAATCTGCTGGTGGTGTTAAATTGGATGAACCTGCGATTGACTTGGCTGTTGCAGTTGCTA
TTGCTTCGAGCTACAAAGACAAGCCAACTAATCCTCAGGAATGTTTTGTCGGAGAACTGGGCTTGACAGGAGAGATTCGG
CGCGTGAATCGTATTGAGCAACGCATCAACGAAGCTGCTAAACTGGGCTTTACTAAGATTTATGTACCTAAGAATTCCTT
GACAGGAATCACTCTGCCTAAGGAAATTCAGGTCATTGGCGTGACAACGATTCAGGAAGTTTTGAAAAAGGTCTTTGCAT
AA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(63-218)

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  PDB 8RXC

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 pneumoniae Rx1

100

100

1
  radA Streptococcus pneumoniae D39

100

100

1
  radA Streptococcus pneumoniae R6

100

100

1
  radA Streptococcus pneumoniae TIGR4

100

100

1
  radA Streptococcus mitis NCTC 12261

99.558

100

0.996
  radA Streptococcus mitis SK321

99.558

100

0.996
  radA Bacillus subtilis subsp. subtilis str. 168

63.135

100

0.631

Multiple sequence alignment