Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   SPB_RS07080 Genome accession   NZ_AEUT02000001
Coordinates   1424457..1425821 (-) Length   454 a.a.
NCBI ID   WP_003105352.1    Uniprot ID   A0A0E2UEM9
Organism   Streptococcus parauberis NCFD 2020     
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 1425864..1437418 1424457..1425821 flank 43


Gene organization within MGE regions


Location: 1424457..1437418
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPB_RS07080 (SPB_1460) radA 1424457..1425821 (-) 1365 WP_003105352.1 DNA repair protein RadA Machinery gene
  SPB_RS07085 (SPB_1461) - 1425864..1426307 (-) 444 WP_003104476.1 dUTP diphosphatase -
  SPB_RS07090 (SPB_1462) - 1426404..1427549 (-) 1146 WP_003104570.1 site-specific integrase -
  SPB_RS07095 (SPB_1463) - 1427662..1428192 (-) 531 WP_003103726.1 helix-turn-helix domain-containing protein -
  SPB_RS07100 (SPB_1464) - 1428405..1428608 (+) 204 WP_003102838.1 helix-turn-helix transcriptional regulator -
  SPB_RS07105 (SPB_1465) - 1428620..1429240 (+) 621 WP_003105821.1 Rha family transcriptional regulator -
  SPB_RS07110 (SPB_1466) - 1429407..1429586 (+) 180 WP_003103900.1 hypothetical protein -
  SPB_RS07115 (SPB_1467) - 1429598..1429882 (+) 285 WP_003102993.1 hypothetical protein -
  SPB_RS07120 (SPB_1468) - 1429875..1430069 (+) 195 WP_003105957.1 hypothetical protein -
  SPB_RS07125 (SPB_1469) - 1430082..1430351 (+) 270 WP_003105431.1 transcriptional regulator -
  SPB_RS07130 (SPB_1470) - 1430351..1431217 (+) 867 WP_003103495.1 primase alpha helix C-terminal domain-containing protein -
  SPB_RS07135 (SPB_1471) - 1431229..1432836 (+) 1608 WP_080558362.1 phage/plasmid primase, P4 family -
  SPB_RS07140 (SPB_1472) - 1433156..1433338 (+) 183 WP_003105758.1 sporulation protein Cse60 -
  SPB_RS07145 (SPB_1473) - 1433433..1434200 (+) 768 WP_003104953.1 hypothetical protein -
  SPB_RS11380 (SPB_1474) - 1434309..1434470 (+) 162 WP_003102525.1 hypothetical protein -
  SPB_RS11385 (SPB_1475) - 1434560..1434730 (+) 171 WP_003103437.1 hypothetical protein -
  SPB_RS07150 (SPB_1476) - 1434727..1434942 (+) 216 WP_003105310.1 hypothetical protein -
  SPB_RS07155 (SPB_1477) - 1434965..1435588 (+) 624 WP_003105978.1 hypothetical protein -
  SPB_RS11590 - 1436075..1436209 (+) 135 WP_003103514.1 hypothetical protein -
  SPB_RS07160 (SPB_1478) - 1437032..1437418 (+) 387 WP_003102996.1 ArpU family phage packaging/lysis transcriptional regulator -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 49684.04 Da        Isoelectric Point: 6.0999

>NTDB_id=64553 SPB_RS07080 WP_003105352.1 1424457..1425821(-) (radA) [Streptococcus parauberis NCFD 2020]
MAKKKATFVCQECGYQSPKYLGRCPNCSSWSSFVEEVEVKEVKNARVSMSGEKSKPIKLKDVDNIHYARTQTDMDEFNRV
LGGGVVPGSMILIGGDPGIGKSTLLLQVSTQLANKGTVLYVSGEESAEQIKLRSERLGDIDNEFYLYAETNMENVRVEVE
RIQPDFLIIDSIQTMMSPEISGIQGSVSQVREVTAELMQLAKTNNIATFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSAGLVEVLNPSQVFLEERLDGATGSAIVVTMEGSRPILAEVQSLVTPTVFGNAR
RTTTGLDFNRVSLIMAVLEKRCGLLLQNQDAYLKSAGGVKLDEPAIDLSVAVAIASSYKEKPTNPQEAFLGEIGLTGEIR
RVTRIEQRINEAAKLGFTKVYAPKNSLQGIKIPSGIEVIGVATVGQVLNAVFSK

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=64553 SPB_RS07080 WP_003105352.1 1424457..1425821(-) (radA) [Streptococcus parauberis NCFD 2020]
ATGGCAAAGAAAAAGGCAACATTTGTCTGTCAGGAGTGTGGTTATCAGTCGCCTAAGTATTTGGGTCGCTGCCCTAACTG
CTCGTCTTGGTCGTCATTTGTTGAAGAAGTTGAAGTTAAGGAAGTCAAGAATGCGCGTGTTAGCATGTCTGGAGAGAAAT
CGAAACCGATTAAACTGAAAGATGTGGATAATATACACTATGCTCGCACTCAGACTGATATGGATGAGTTTAATCGTGTG
CTTGGTGGTGGTGTTGTTCCTGGGAGCATGATTCTAATTGGTGGTGATCCTGGGATAGGGAAGTCAACTTTGCTTTTACA
GGTATCGACCCAGTTAGCGAACAAGGGGACGGTTCTCTATGTTTCTGGTGAGGAATCGGCAGAGCAAATTAAACTCCGTA
GTGAACGTCTTGGTGACATTGATAATGAATTCTATCTTTATGCTGAGACTAATATGGAAAATGTCCGTGTAGAGGTGGAA
CGGATTCAGCCTGATTTTTTAATTATTGACTCGATTCAAACGATGATGAGTCCAGAAATTTCTGGTATCCAAGGTTCTGT
TAGTCAGGTAAGAGAAGTGACTGCTGAATTGATGCAATTAGCCAAAACTAATAACATTGCCACCTTTATTGTTGGTCATG
TAACTAAGGAAGGGACTTTGGCAGGTCCACGGATGCTAGAACATATGGTGGATACGGTTCTCTATTTTGAAGGAGAAAGG
CATCATACCTTCAGGATCCTAAGAGCTGTCAAAAATCGTTTTGGGTCGACTAATGAAATTGGTATCTTTGAGATGCAATC
GGCTGGTTTAGTAGAAGTGCTTAATCCTAGCCAAGTATTCTTAGAAGAACGTTTGGATGGAGCTACTGGTTCTGCCATTG
TCGTCACAATGGAAGGTAGTCGGCCAATTCTTGCAGAGGTGCAATCACTTGTAACACCAACCGTATTTGGTAATGCCAGA
CGGACGACAACGGGTTTGGATTTTAACAGGGTCAGTTTGATTATGGCTGTTTTGGAAAAACGCTGTGGACTTCTCCTGCA
AAATCAGGACGCCTATCTCAAGTCTGCTGGGGGAGTCAAGCTTGATGAACCAGCTATTGACCTTTCTGTAGCGGTAGCCA
TTGCGTCCAGCTATAAGGAAAAGCCGACTAATCCTCAAGAAGCTTTCTTAGGTGAGATAGGTTTGACGGGAGAGATTCGT
CGAGTGACGCGAATTGAACAGCGGATAAATGAGGCAGCCAAATTAGGCTTTACGAAGGTTTATGCGCCTAAGAACTCTTT
ACAAGGGATTAAAATTCCTAGTGGTATTGAAGTTATTGGGGTAGCAACAGTAGGACAAGTCCTAAATGCTGTATTTTCGA
AATAA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)

AAA domain (AAA_25)

(72-218)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0E2UEM9

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

86.534

99.78

0.863
  radA Streptococcus pneumoniae D39

86.534

99.78

0.863
  radA Streptococcus pneumoniae R6

86.534

99.78

0.863
  radA Streptococcus pneumoniae TIGR4

86.534

99.78

0.863
  radA Streptococcus mitis NCTC 12261

86.534

99.78

0.863
  radA Streptococcus mitis SK321

86.534

99.78

0.863
  radA Bacillus subtilis subsp. subtilis str. 168

61.283

99.559

0.61

Multiple sequence alignment