Detailed information    

experimental Experimentally validated

Overview

Name   radA   Type   Machinery gene
Locus tag   SPD_RS00140 Genome accession   NC_008533
Coordinates   25750..27111 (+) Length   453 a.a.
NCBI ID   WP_074017595.1    Uniprot ID   A0A237IXT5
Organism   Streptococcus pneumoniae D39     
Function   homologous recombination   
Homologous recombination

Function

RadA is a DNA repair protein involved in homologous recombination during natural transformation. Whereas RadA is not required for transformation with a replicating plasmid, it is needed for efficient transformation with a chromosomal marker.


Genomic Context

Location: 20750..32111
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPD_RS00105 (SPD_0022) - 21106..21902 (-) 797 Protein_15 transposase -
  SPD_RS00110 (SPD_0023) comW 22168..22404 (+) 237 WP_000939545.1 sigma(X)-activator ComW Regulator
  SPD_RS00115 (SPD_0024) - 22635..23921 (+) 1287 WP_000205044.1 adenylosuccinate synthase -
  SPD_RS00120 (SPD_0025) tadA 24122..24589 (+) 468 WP_000291874.1 tRNA adenosine(34) deaminase TadA -
  SPD_RS00130 (SPD_0027) - 24776..25219 (+) 444 WP_000701992.1 dUTP diphosphatase -
  SPD_RS00135 (SPD_0028) - 25221..25736 (+) 516 WP_000691236.1 histidine phosphatase family protein -
  SPD_RS00140 (SPD_0029) radA 25750..27111 (+) 1362 WP_074017595.1 DNA repair protein RadA Machinery gene
  SPD_RS00145 (SPD_0030) - 27184..27681 (+) 498 WP_001809263.1 beta-class carbonic anhydrase -
  SPD_RS00150 (SPD_0031) - 27706..28489 (+) 784 Protein_23 PrsW family glutamic-type intramembrane protease -
  SPD_RS00155 (SPD_0033) - 28634..29602 (+) 969 WP_000010163.1 ribose-phosphate diphosphokinase -
  SPD_RS00160 (SPD_0034) - 29735..30016 (-) 282 Protein_25 ISL3 family transposase -
  SPD_RS11420 - 30143..31053 (-) 911 Protein_26 Rpn family recombination-promoting nuclease/putative transposase -

Sequence

Protein


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

>NTDB_id=238 SPD_RS00140 WP_074017595.1 25750..27111(+) (radA) [Streptococcus pneumoniae D39]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPKNSLTGITLPKEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=238 SPD_RS00140 WP_074017595.1 25750..27111(+) (radA) [Streptococcus pneumoniae D39]
ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCCCCTAAATATCTGGGACGTTGCCCCAACTG
TGGGTCTTGGTCTTCTTTTGTGGAAGAGGTTGAGGTTGCCGAAGTTAAGAATGCGCGTGTGTCCTTGACAGGTGAGAAAA
CCAAGCCCATGAAACTAGCTGAGGTGACTTCCATCAATGTCAATCGAACCAAGACGGAGATGGAGGAATTCAACCGTGTG
CTTGGAGGCGGAGTGGTACCAGGAAGTCTCGTCCTTATCGGTGGGGATCCTGGGATTGGGAAATCAACTCTTCTCCTACA
AGTCTCAACCCAGTTGTCCCAAGTGGGGACAGTTCTCTATGTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAACTACGTG
CAGAGCGCTTAGGTGATATTGATAGTGAGTTTTATCTCTATGCAGAGACCAATATGCAGAGTGTTCGTGCAGAAGTGGAG
CGTATCCAGCCAGACTTTCTCATTATTGATTCCATCCAGACCATCATGTCTCCTGAGATTTCAGGGGTGCAGGGGTCTGT
TTCTCAGGTGCGTGAAGTGACCGCTGAACTCATGCAGTTGGCCAAGACCAATAACATTGCCATCTTTATCGTAGGTCATG
TGACCAAAGAAGGAACCTTGGCTGGGCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
CACCACACCTTTCGTATTTTGAGAGCGGTCAAAAATCGTTTTGGTTCCACTAATGAGATTGGGATTTTTGAGATGCAGTC
GGGCGGCTTGGTTGAGGTACTCAATCCGAGTCAAGTTTTCCTAGAAGAGCGTTTGGATGGGGCGACTGGTTCCTCCATCG
TTGTAACCATGGAAGGGACGCGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
CGTACTACGACAGGACTTGATTTTAACCGTGCTAGCTTGATTATGGCTGTTTTGGAAAAACGGGCAGGGCTTCTCTTGCA
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 TIGR4

100

100

1
  radA Streptococcus pneumoniae Rx1

100

100

1
  radA Streptococcus pneumoniae R6

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    



References

[1] Mozhgan Kheirandish et al. (2020) Ferritin Degradation by Pneumococcal HtrA, RadA and ClpP Serine Proteases : A Probable Way For Releasing and Acquisition Of Iron. Infection And Drug Resistance 13:3145-3152. [PMID: 32982329]
[2] Peter Burghout et al. (2007) Search for genes essential for pneumococcal transformation: the RADA DNA repair protein plays a role in genomic recombination of donor DNA. Journal of Bacteriology 189(18):6540-50. [PMID: 17631629]
[3] Scott N Peterson et al. (2004) Identification of competence pheromone responsive genes in Streptococcus pneumoniae by use of DNA microarrays. Molecular Microbiology 51(4):1051-70. [PMID: 14763980]