Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   R8623_RS00210 Genome accession   NZ_AP026928
Coordinates   31998..33359 (+) Length   453 a.a.
NCBI ID   WP_075213698.1    Uniprot ID   A0A7X2XL61
Organism   Streptococcus pneumoniae strain PZ900700406     
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 12175..44018 31998..33359 within 0


Gene organization within MGE regions


Location: 12175..44018
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R8623_RS00065 (PC0401_00130) ftsH 12175..14133 (+) 1959 WP_000744557.1 ATP-dependent zinc metalloprotease FtsH -
  R8623_RS00070 (PC0401_00140) comX/comX2 14255..14734 (+) 480 WP_000588925.1 sigma-70 family RNA polymerase sigma factor Regulator
  R8623_RS00105 - 20225..21071 (+) 847 Protein_14 IS630 family transposase -
  R8623_RS00110 - 21106..21903 (-) 798 Protein_15 transposase -
  R8623_RS00115 (PC0401_00180) comW 22169..22405 (+) 237 WP_000939544.1 sigma(X)-activator ComW Regulator
  R8623_RS00120 (PC0401_00190) - 22636..23922 (+) 1287 WP_000205044.1 adenylosuccinate synthase -
  R8623_RS00125 (PC0401_00200) tadA 24123..24590 (+) 468 WP_000291870.1 tRNA adenosine(34) deaminase TadA -
  R8623_RS00135 (PC0401_00210) - 24799..25497 (-) 699 WP_001106362.1 site-specific integrase -
  R8623_RS00140 (PC0401_00220) - 25587..25940 (-) 354 WP_001814135.1 hypothetical protein -
  R8623_RS00145 (PC0401_00230) - 25995..27059 (-) 1065 WP_061374999.1 type I restriction endonuclease -
  R8623_RS00150 (PC0401_00240) - 27076..27456 (-) 381 WP_000170931.1 ImmA/IrrE family metallo-endopeptidase -
  R8623_RS00155 (PC0401_00250) - 27469..27732 (-) 264 WP_000285962.1 type II toxin-antitoxin system RelE/ParE family toxin -
  R8623_RS00160 (PC0401_00260) - 27732..27965 (-) 234 WP_000156419.1 hypothetical protein -
  R8623_RS00165 (PC0401_00270) - 27965..28333 (-) 369 WP_000464160.1 helix-turn-helix domain-containing protein -
  R8623_RS00170 (PC0401_00290) - 28905..29096 (+) 192 WP_001112859.1 DNA-binding protein -
  R8623_RS00175 (PC0401_00300) - 29119..29322 (+) 204 WP_001247549.1 hypothetical protein -
  R8623_RS00180 (PC0401_00320) - 29477..29644 (-) 168 WP_000024181.1 YjzC family protein -
  R8623_RS00185 (PC0401_00330) - 29649..30029 (+) 381 Protein_29 autolysin -
  R8623_RS00190 (PC0401_00340) - 30249..30428 (-) 180 WP_001209433.1 hypothetical protein -
  R8623_RS00195 (PC0401_00350) - 30570..30719 (-) 150 WP_001030863.1 hypothetical protein -
  R8623_RS00200 (PC0401_00360) - 31024..31467 (+) 444 WP_000701992.1 dUTP diphosphatase -
  R8623_RS00205 (PC0401_00370) - 31469..31984 (+) 516 WP_000691236.1 histidine phosphatase family protein -
  R8623_RS00210 (PC0401_00380) radA 31998..33359 (+) 1362 WP_075213698.1 DNA repair protein RadA Machinery gene
  R8623_RS00215 (PC0401_00390) - 33432..33929 (+) 498 WP_001809263.1 carbonic anhydrase -
  R8623_RS00220 (PC0401_00400) - 33954..34737 (+) 784 Protein_36 PrsW family glutamic-type intramembrane protease -
  R8623_RS00225 (PC0401_00410) - 34882..35850 (+) 969 WP_000010157.1 ribose-phosphate diphosphokinase -
  R8623_RS00230 - 35984..36265 (-) 282 Protein_38 ISL3 family transposase -
  R8623_RS00235 - 36392..37274 (-) 883 Protein_39 Rpn family recombination-promoting nuclease/putative transposase -
  R8623_RS00240 (PC0401_00440) polA 37530..40163 (+) 2634 WP_317649668.1 DNA polymerase I -
  R8623_RS00245 (PC0401_00450) - 40248..40685 (+) 438 WP_000076483.1 CoA-binding protein -
  R8623_RS00250 (PC0401_00460) - 40923..41933 (-) 1011 WP_000009141.1 YeiH family protein -
  R8623_RS00255 (PC0401_00480) - 42082..43251 (+) 1170 WP_000366376.1 pyridoxal phosphate-dependent aminotransferase -
  R8623_RS00260 (PC0401_00490) recO 43248..44018 (+) 771 WP_000616164.1 DNA repair protein RecO -

Sequence

Protein


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

>NTDB_id=98559 R8623_RS00210 WP_075213698.1 31998..33359(+) (radA) [Streptococcus pneumoniae strain PZ900700406]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPQNSLTGITLPKEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=98559 R8623_RS00210 WP_075213698.1 31998..33359(+) (radA) [Streptococcus pneumoniae strain PZ900700406]
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