Detailed information    

experimental Experimentally validated

Overview

Name   radA   Type   Machinery gene
Locus tag   SM12261_RS00130 Genome accession   NZ_CP028414
Coordinates   24184..25545 (+) Length   453 a.a.
NCBI ID   WP_078228442.1    Uniprot ID   -
Organism   Streptococcus mitis NCTC 12261     
Function   homologous recombination   
Homologous recombination

Function

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


Genomic Context

Location: 19184..30545
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SM12261_RS00100 (SM12261_0022) comW 20603..20836 (+) 234 WP_000941923.1 sigma(X)-activator ComW Regulator
  SM12261_RS00105 (SM12261_0023) - 21070..22356 (+) 1287 WP_025169748.1 adenylosuccinate synthase -
  SM12261_RS00110 (SM12261_0024) tadA 22556..23023 (+) 468 WP_001110112.1 tRNA adenosine(34) deaminase TadA -
  SM12261_RS00120 (SM12261_0025) - 23210..23653 (+) 444 WP_000702005.1 dUTP diphosphatase -
  SM12261_RS00125 (SM12261_0026) - 23613..24170 (+) 558 WP_000863561.1 histidine phosphatase family protein -
  SM12261_RS00130 (SM12261_0027) radA 24184..25545 (+) 1362 WP_078228442.1 DNA repair protein RadA Machinery gene
  SM12261_RS00135 (SM12261_0028) - 25618..26115 (+) 498 WP_004236873.1 beta-class carbonic anhydrase -
  SM12261_RS00140 (SM12261_0029) - 26140..26955 (+) 816 WP_000742256.1 PrsW family intramembrane metalloprotease -
  SM12261_RS00145 (SM12261_0030) - 27101..28069 (+) 969 WP_000010168.1 ribose-phosphate diphosphokinase -
  SM12261_RS00150 (SM12261_0031) - 28187..29154 (+) 968 Protein_23 Rpn family recombination-promoting nuclease/putative transposase -
  SM12261_RS00160 (SM12261_0033) - 29147..29583 (+) 437 Protein_24 hypothetical protein -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49446.93 Da        Isoelectric Point: 6.5137

>NTDB_id=509 SM12261_RS00130 WP_078228442.1 24184..25545(+) (radA) [Streptococcus mitis NCTC 12261]
MAKKKATFVCQNCGYNSPKYLGRCPNCGSWSSFVEEVEVAEVKNARVSLTGEKTKPMKLAEVTSINVNRTKTEMEEFNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNMQSVRTEVE
RIQPDFLIIDSIQTIMSPEISGVQGSVSQVREVTAELMQLAKTNNIAIFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVTPTMFGNAK
RTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIR
RVNRIEQRINEAAKLGFTKIYVPKNSLTGITPPKEIQVIGVTTIQEVLKKVFA

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=509 SM12261_RS00130 WP_078228442.1 24184..25545(+) (radA) [Streptococcus mitis NCTC 12261]
ATCGCAAAGAAAAAAGCGACATTTGTATGTCAAAATTGTGGGTATAATTCACCTAAATATCTGGGGCGTTGCCCCAACTG
TGGGTCTTGGTCTTCTTTTGTAGAAGAGGTTGAGGTTGCCGAGGTCAAGAATGCGCGTGTGTCCTTGACAGGTGAGAAAA
CCAAGCCCATGAAACTGGCTGAGGTGACTTCCATCAATGTCAATCGAACCAAGACGGAGATGGAGGAATTCAACCGTGTA
CTTGGAGGCGGAGTGGTACCGGGAAGTCTCGTCCTCATAGGTGGGGATCCTGGGATTGGGAAATCAACCCTTCTCCTACA
AGTCTCAACTCAGCTGTCTCAAGTTGGGACTGTTCTCTACGTCAGTGGGGAGGAGTCTGCCCAGCAGATTAAGCTACGAG
CAGAGCGCTTGGGTGATATTGATAGTGAGTTTTATCTTTATGCAGAGACCAATATGCAGAGTGTTCGAACTGAGGTGGAG
CGCATCCAGCCAGACTTCCTCATCATCGACTCCATTCAGACTATTATGTCTCCTGAGATTTCAGGGGTGCAGGGGTCTGT
TTCTCAAGTGCGTGAGGTGACAGCGGAACTTATGCAGCTGGCCAAAACAAATAACATTGCCATCTTTATCGTAGGACATG
TGACCAAGGAGGGCACTCTAGCTGGTCCTCGTATGTTGGAGCATATGGTGGATACGGTGCTTTACTTTGAAGGGGAGCGT
CACCATACCTTTCGTATTTTGAGAGCGGTCAAAAACCGGTTTGGCTCCACTAATGAGATTGGGATTTTTGAGATGCAGTC
GGGTGGCTTGGTTGAAGTCCTCAATCCGAGTCAAGTTTTCCTAGAGGAGCGTTTGGATGGGGCGACTGGTTCGTCAATCG
TTGTGACTATGGAAGGGACGCGTCCGATTTTGGCGGAGGTTCAGGCTTTGGTAACACCGACCATGTTTGGAAATGCCAAG
CGTACGACGACAGGACTTGATTTTAATCGTGCGAGTTTGATTATGGCTGTTTTGGAAAAGCGTGCAGGTCTTCTCTTGCA
AAATCAGGATGCCTATCTCAAATCTGCTGGCGGTGTTAAATTGGATGAACCTGCGATAGACTTAGCTGTTGCGGTTGCTA
TTGCTTCGAGTTATAAAGACAAGCCAACTAATCCTCAGGAATGTTTTGTAGGAGAACTTGGTTTGACGGGAGAGATTCGG
CGCGTGAATCGTATCGAACAACGCATCAATGAAGCTGCTAAACTGGGATTTACTAAGATTTATGTACCTAAGAATTCTTT
GACAGGAATCACTCCGCCTAAGGAAATTCAGGTCATTGGAGTAACAACGATTCAGGAAGTTTTGAAAAAGGTCTTTGCAT
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 TIGR4

99.558

100

0.996
  radA Streptococcus pneumoniae D39

99.558

100

0.996
  radA Streptococcus mitis SK321

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

63.135

100

0.631

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]