Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   E0F32_RS00105 Genome accession   NZ_LR216050
Coordinates   11073..12434 (+) Length   453 a.a.
NCBI ID   WP_075213698.1    Uniprot ID   A0A7X2XL61
Organism   Streptococcus pneumoniae strain GPSC10 substr. ST2013 isolate GPS_US_PATH396-sc-2296505     
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 1663..19295 11073..12434 within 0


Gene organization within MGE regions


Location: 1663..19295
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E0F32_RS00020 (SAMEA3431333_00003) - 1705..2991 (+) 1287 WP_000205044.1 adenylosuccinate synthase -
  E0F32_RS00025 (SAMEA3431333_00004) tadA 3192..3659 (+) 468 WP_000291870.1 tRNA adenosine(34) deaminase TadA -
  E0F32_RS11690 (SAMEA3431333_00005) - 3868..4584 (-) 717 WP_001820871.1 tyrosine-type recombinase/integrase -
  E0F32_RS11695 (SAMEA3431333_00006) - 4656..5003 (-) 348 WP_001839379.1 hypothetical protein -
  E0F32_RS00045 (SAMEA3431333_00007) - 5064..6134 (-) 1071 WP_000401841.1 type I restriction endonuclease -
  E0F32_RS00050 (SAMEA3431333_00008) - 6151..6531 (-) 381 WP_000170931.1 ImmA/IrrE family metallo-endopeptidase -
  E0F32_RS00055 (SAMEA3431333_00009) - 6544..6807 (-) 264 WP_000285962.1 type II toxin-antitoxin system RelE family toxin -
  E0F32_RS00060 (SAMEA3431333_00010) - 6807..7040 (-) 234 WP_000156419.1 hypothetical protein -
  E0F32_RS00065 (SAMEA3431333_00011) - 7040..7408 (-) 369 WP_000464160.1 helix-turn-helix domain-containing protein -
  E0F32_RS00070 (SAMEA3431333_00014) - 7980..8171 (+) 192 WP_001112859.1 DNA-binding protein -
  E0F32_RS00075 (SAMEA3431333_00015) - 8194..8397 (+) 204 WP_001247549.1 hypothetical protein -
  E0F32_RS00080 (SAMEA3431333_00017) - 8552..8719 (-) 168 WP_000024181.1 YjzC family protein -
  E0F32_RS00085 (SAMEA3431333_00018) - 8724..9104 (+) 381 Protein_15 autolysin -
  E0F32_RS00090 (SAMEA3431333_00019) - 9324..9503 (-) 180 WP_001209433.1 hypothetical protein -
  E0F32_RS11490 - 9645..9794 (-) 150 WP_001030863.1 hypothetical protein -
  E0F32_RS00095 (SAMEA3431333_00020) - 10099..10542 (+) 444 WP_000701992.1 dUTP diphosphatase -
  E0F32_RS00100 (SAMEA3431333_00021) - 10544..11059 (+) 516 WP_000691236.1 histidine phosphatase family protein -
  E0F32_RS00105 (SAMEA3431333_00022) radA 11073..12434 (+) 1362 WP_075213698.1 DNA repair protein RadA Machinery gene
  E0F32_RS00110 (SAMEA3431333_00023) - 12507..13004 (+) 498 WP_001809263.1 beta-class carbonic anhydrase -
  E0F32_RS00115 (SAMEA3431333_00024) - 13029..13844 (+) 816 WP_000749768.1 PrsW family intramembrane metalloprotease -
  E0F32_RS00120 (SAMEA3431333_00025) - 13989..14957 (+) 969 WP_054377095.1 ribose-phosphate diphosphokinase -
  E0F32_RS00125 - 15091..15372 (-) 282 Protein_24 ISL3 family transposase -
  E0F32_RS11700 - 15499..16406 (-) 908 Protein_25 Rpn family recombination-promoting nuclease/putative transposase -
  E0F32_RS00145 (SAMEA3431333_00029) polA 16662..19295 (+) 2634 WP_061384483.1 DNA polymerase I -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49432.91 Da        Isoelectric Point: 6.1868

>NTDB_id=1126089 E0F32_RS00105 WP_075213698.1 11073..12434(+) (radA) [Streptococcus pneumoniae strain GPSC10 substr. ST2013 isolate GPS_US_PATH396-sc-2296505]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPQNSLTGITLPKEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=1126089 E0F32_RS00105 WP_075213698.1 11073..12434(+) (radA) [Streptococcus pneumoniae strain GPSC10 substr. ST2013 isolate GPS_US_PATH396-sc-2296505]
ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCCCCTAAATATCTGGGACGTTGCCCCAACTG
TGGGTCTTGGTCTTCTTTTGTGGAAGAGGTTGAGGTTGCCGAGGTCAAGAATGCGCGTGTGTCCTTGACAGGTGAGAAAA
CCAAGCCCATGAAACTAGCTGAGGTGACTTCCATCAATGTCAATCGAACCAAGACGGAGATGGAGGAATTCAACCGTGTG
CTTGGAGGCGGAGTGGTACCAGGAAGTCTCGTCCTCATCGGTGGGGATCCTGGGATTGGGAAATCAACTCTTCTCCTACA
AGTCTCAACCCAGTTGTCCCAAGTGGGGACAGTTCTCTATGTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAACTACGTG
CAGAGCGCTTAGGTGATATTGATAGTGAGTTTTATCTCTATGCAGAGACCAATATGCAGAGTGTTCGTGCAGAAGTGGAG
CGTATCCAGCCAGACTTTCTCATTATTGATTCCATCCAGACCATCATGTCTCCTGAGATTTCAGGGGTGCAGGGGTCTGT
TTCTCAGGTACGTGAAGTGACCGCTGAACTCATGCAGTTGGCCAAGACCAATAACATTGCCATCTTTATCGTAGGTCATG
TGACCAAAGAAGGAACCTTGGCTGGGCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
CACCACACCTTTCGTATTTTGAGAGCGGTCAAAAATCGTTTTGGTTCCACTAATGAGATTGGGATTTTTGAGATGCAGTC
GGGCGGCTTGGTTGAGGTACTCAATCCGAGTCAAGTTTTCCTAGAAGAGCGTTTGGATGGGGCGACTGGTTCCTCCATCG
TTGTAACCATGGAAGGGACGCGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
CGTACTACGACAGGACTTGATTTTAACCGTGCTAGCTTGATTATGGCTGTTTTGGAAAAACGGGCAGGGCTTCTCTTGCA
AAATCAGGATGCCTATCTCAAATCTGCTGGTGGTGTTAAATTGGATGAACCTGCCATTGACTTGGCTGTTGCAGTTGCTA
TTGCTTCGAGCTACAAAGACAAGCCAACTAATCCTCAGGAATGTTTTGTCGGAGAACTGGGCTTGACAGGAGAGATTCGG
CGCGTGAATCGTATTGAGCAACGCATCAACGAAGCTGCTAAACTGGGCTTTACTAAGATTTATGTACCTCAGAATTCCTT
GACAGGAATCACTCTGCCTAAGGAAATTCAGGTCATTGGCGTGACAACGATTCAGGAAGTCTTGAAAAAGGTCTTTGCAT
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
  AlphaFold DB A0A7X2XL61

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

99.779

100

0.998
  radA Streptococcus pneumoniae D39

99.779

100

0.998
  radA Streptococcus pneumoniae R6

99.779

100

0.998
  radA Streptococcus pneumoniae TIGR4

99.779

100

0.998
  radA Streptococcus mitis NCTC 12261

99.338

100

0.993
  radA Streptococcus mitis SK321

99.338

100

0.993
  radA Bacillus subtilis subsp. subtilis str. 168

63.135

100

0.631

Multiple sequence alignment