Detailed information    

experimental Experimentally validated

Overview

Name   radA   Type   Machinery gene
Locus tag   SMSK321_RS07120 Genome accession   NZ_AEDT01000020
Coordinates   4041..5402 (+) Length   453 a.a.
NCBI ID   WP_080550752.1    Uniprot ID   -
Organism   Streptococcus mitis SK321     
Function   homologous recombination   
Homologous recombination

Function

Upregulated in response to CSP as measured by RNA-seq.


Genomic Context

Location: 1..10402
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SMSK321_RS07095 (SMSK321_0337) comW 460..696 (+) 237 WP_000941922.1 sigma(X)-activator ComW Regulator
  SMSK321_RS07100 (SMSK321_0338) - 927..2213 (+) 1287 WP_001832534.1 adenylosuccinate synthase -
  SMSK321_RS07105 (SMSK321_0339) tadA 2413..2880 (+) 468 WP_001110114.1 tRNA adenosine(34) deaminase TadA -
  SMSK321_RS07110 (SMSK321_0340) - 3067..3510 (+) 444 WP_000701987.1 dUTP diphosphatase -
  SMSK321_RS07115 (SMSK321_0341) - 3470..4027 (+) 558 WP_000863560.1 histidine phosphatase family protein -
  SMSK321_RS07120 (SMSK321_0342) radA 4041..5402 (+) 1362 WP_080550752.1 DNA repair protein RadA Machinery gene
  SMSK321_RS07125 (SMSK321_0343) - 5475..5972 (+) 498 WP_004234980.1 beta-class carbonic anhydrase -
  SMSK321_RS07130 (SMSK321_0344) - 5997..6812 (+) 816 WP_000739972.1 PrsW family glutamic-type intramembrane protease -
  SMSK321_RS07135 (SMSK321_0345) - 6958..7926 (+) 969 WP_000010158.1 ribose-phosphate diphosphokinase -
  SMSK321_RS07140 (SMSK321_0346) - 8151..9062 (+) 912 WP_000603353.1 Rpn family recombination-promoting nuclease/putative transposase -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49419.92 Da        Isoelectric Point: 6.1868

>NTDB_id=537 SMSK321_RS07120 WP_080550752.1 4041..5402(+) (radA) [Streptococcus mitis SK321]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRAEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPKNSLTGITPPMEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=537 SMSK321_RS07120 WP_080550752.1 4041..5402(+) (radA) [Streptococcus mitis SK321]
ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCCCCTAAATATCTGGGACGATGTCCTAACTG
TGGGTCTTGGTCTTCCTTTGTAGAAGAGGTTGAGGTTGCCGAGGTCAAAAATGCGCGTGTGTCTTTAACAGGTGAGAAAA
CCAAGCCCATGAAACTGGCTGAGGTGACTTCTATCAACGTCAATCGAACCAAGACGGAGATGGAGGAATTTAACCGTGTA
CTTGGGGGAGGAGTGGTACCAGGAAGTCTTGTGCTTATAGGTGGAGATCCTGGAATCGGGAAATCAACCCTTCTCCTACA
AGTTTCAACCCAGTTGTCCCAAGTGGGAACGGTTCTCTACGTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAACTACGTG
CAGAGCGTTTGGGTGATATTGATAGCGAGTTTTATCTCTATGCAGAGACCAATATGCAGAGTGTTCGAGCTGAGGTGGAG
CGCATCCAACCAGACTTCCTCATTATTGACTCCATTCAGACTATTATGTCTCCTGAGATTTCAGGGGTGCAGGGATCTGT
TTCTCAAGTGCGTGAGGTGACAGCGGAACTTATGCAGCTGGCCAAGACTAATAATATTGCCATCTTTATCGTAGGGCATG
TGACCAAGGAAGGAACCTTGGCTGGTCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
CACCATACCTTCCGTATTTTGAGAGCGGTCAAAAACCGTTTTGGTTCTACCAATGAAATTGGGATTTTTGAGATGCAGTC
GGGCGGCTTGGTTGAGGTACTCAATCCGAGTCAAGTTTTCCTAGAAGAGCGTTTGGATGGAGCAACTGGTTCATCAATCG
TTGTGACCATGGAAGGGACGCGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
CGTACGACGACGGGACTTGATTTTAATCGTGCTAGCTTGATTATGGCTGTTTTGGAAAAGCGGGCAGGTCTTCTCTTGCA
AAATCAGGACGCCTATCTTAAATCTGCTGGCGGTGTCAAATTGGATGAGCCTGCCATTGACTTGGCCGTTGCAGTTGCCA
TTGCTTCGAGTTATAAAGACAAGCCAACTAATCCTCAGGAATGTTTTGTAGGGGAGCTTGGTTTGACGGGGGAAATTCGG
CGCGTGAATCGTATCGAGCAGCGCATTAATGAAGCTGCTAAACTTGGATTTACAAAAATCTATGTACCTAAGAATTCCTT
GACAGGAATCACTCCACCCATGGAAATTCAGGTCATTGGGGTGACAACGATTCAGGAAGTTTTGAAAAAGGTTTTTGCTT
AA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)

AAA domain (AAA_25)

(63-218)


Secondary structure

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



3D structure

Source ID Structure

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 D39

99.558

100

0.996
  radA Streptococcus mitis NCTC 12261

99.558

100

0.996
  radA Streptococcus pneumoniae TIGR4

99.558

100

0.996
  radA Streptococcus pneumoniae Rx1

99.558

100

0.996
  radA Streptococcus pneumoniae R6

99.558

100

0.996
  radA Bacillus subtilis subsp. subtilis str. 168

62.914

100

0.629

Multiple sequence alignment    



References

[1] G Salvadori et al. (2018) High-resolution profiles of the Streptococcus mitis CSP signaling pathway reveal core and strain-specific regulated genes. BMC Genomics 19(1):453. [PMID: 29898666]