Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   SGY26_RS03655 Genome accession   NZ_CP139083
Coordinates   742130..743494 (+) Length   454 a.a.
NCBI ID   WP_409046737.1    Uniprot ID   -
Organism   Lacticaseibacillus paracasei strain M115-8W-2     
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 741571..752281 742130..743494 within 0


Gene organization within MGE regions


Location: 741571..752281
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SGY26_RS03650 (SGY26_03650) - 741571..742113 (+) 543 WP_003567256.1 dUTP diphosphatase -
  SGY26_RS03655 (SGY26_03655) radA 742130..743494 (+) 1365 WP_409046737.1 DNA repair protein RadA Machinery gene
  SGY26_RS03660 (SGY26_03660) - 743516..744631 (+) 1116 WP_003567252.1 PIN/TRAM domain-containing protein -
  SGY26_RS03665 (SGY26_03665) - 744735..745631 (-) 897 WP_409046738.1 helix-turn-helix domain-containing protein -
  SGY26_RS03670 (SGY26_03670) - 745912..746610 (+) 699 Protein_718 ATP-binding cassette domain-containing protein -
  SGY26_RS03675 (SGY26_03675) - 746632..747552 (-) 921 WP_003574021.1 IS30 family transposase -
  SGY26_RS03680 (SGY26_03680) - 747651..747875 (+) 225 WP_409046739.1 hypothetical protein -
  SGY26_RS03685 (SGY26_03685) - 747879..748655 (+) 777 WP_003577837.1 ABC transporter permease -
  SGY26_RS03690 (SGY26_03690) - 748699..748803 (+) 105 WP_191994146.1 bacteriocin -
  SGY26_RS03695 (SGY26_03695) - 748847..748960 (+) 114 WP_003577835.1 bacteriocin -
  SGY26_RS03700 (SGY26_03700) - 749061..749900 (+) 840 WP_409046740.1 cysteine peptidase family C39 domain-containing protein -
  SGY26_RS03705 (SGY26_03705) - 749971..750891 (+) 921 WP_003574021.1 IS30 family transposase -
  SGY26_RS03710 (SGY26_03710) - 750971..752281 (+) 1311 WP_409046841.1 peptide cleavage/export ABC transporter -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 49159.55 Da        Isoelectric Point: 7.7207

>NTDB_id=907104 SGY26_RS03655 WP_409046737.1 742130..743494(+) (radA) [Lacticaseibacillus paracasei strain M115-8W-2]
MAKAKTQYVCQNCGYISATYLGRCPNCGGWNTLVEETVSSSKSVPRQTAAGSKIKPTRMNDVTITKETRVKTGLDELNRV
LGGGVVPGSLVLIGGDPGIGKSTLLLQVSGQLANTGGTVLYVSGEESASQIKMRAGRLGVANSGMYLYPETDMPSIEDVI
NQMQPDYVVIDSVQTMNVPEMNSAVGSVAQIREVTAELMRIAKSKGVTIFIVGHVTKEGAIAGPKILEHMVDTVLYFEGD
MHHTYRILRSVKNRFGSTNEIGIFEMRQDGLQEVANPSEIFLEERLAGATGSAVVVSMEGTRPILVEIQALISPTMYGNA
KRTSSGLDHNRVSLIMAVLEKRANLMLQNQDAYLKATGGVKLDEPAIDLAMAVAIASSYRDKEISPTDCFVGEIGLTGEV
RRVNRIEERVKEAAKLGFKRIFVPRNNLQGWHAPKDIQVIGVTSIAEALHKVFN

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=907104 SGY26_RS03655 WP_409046737.1 742130..743494(+) (radA) [Lacticaseibacillus paracasei strain M115-8W-2]
ATGGCGAAAGCAAAAACACAATATGTTTGCCAAAACTGTGGCTATATTTCAGCCACTTATCTAGGCCGGTGTCCAAATTG
CGGCGGCTGGAACACCTTAGTGGAAGAAACCGTCAGTTCAAGCAAGTCTGTGCCGCGACAAACCGCAGCCGGAAGCAAGA
TAAAGCCGACGCGGATGAACGATGTGACGATCACCAAAGAAACGCGCGTCAAGACTGGCTTAGATGAACTGAACCGGGTG
CTTGGCGGCGGAGTGGTGCCAGGGTCACTGGTGCTGATCGGCGGGGATCCGGGGATTGGTAAATCAACCTTGCTATTACA
AGTATCAGGGCAGTTGGCTAATACCGGCGGAACGGTTTTGTATGTCTCTGGCGAAGAAAGTGCCAGTCAGATCAAAATGC
GGGCTGGCCGGCTTGGCGTGGCAAATTCGGGGATGTACTTGTATCCCGAAACCGACATGCCGAGTATTGAAGACGTCATC
AACCAAATGCAGCCGGATTATGTTGTGATCGACTCCGTTCAAACTATGAATGTGCCAGAAATGAATTCAGCGGTCGGTTC
TGTGGCACAGATTCGCGAAGTGACGGCAGAACTGATGCGCATTGCCAAGTCCAAAGGCGTGACCATTTTCATCGTTGGCC
ATGTCACTAAGGAAGGGGCGATTGCCGGGCCGAAGATTCTTGAGCATATGGTCGACACGGTGCTCTATTTTGAAGGCGAC
ATGCACCACACGTATCGAATCTTAAGATCCGTCAAAAATCGATTTGGATCGACCAATGAAATCGGCATTTTTGAAATGCG
TCAAGACGGGTTACAGGAAGTCGCCAATCCCTCGGAAATCTTCTTGGAAGAACGCTTGGCGGGGGCAACCGGTTCTGCGG
TGGTTGTTTCGATGGAAGGCACCCGACCAATCTTAGTCGAGATTCAAGCCTTGATCAGTCCAACGATGTATGGCAATGCT
AAACGGACGAGCAGTGGGTTGGATCACAATCGAGTGAGCTTGATCATGGCCGTTCTTGAGAAGCGGGCTAACTTGATGTT
GCAAAATCAGGACGCCTATCTCAAGGCAACAGGCGGTGTGAAACTCGATGAGCCGGCGATTGACCTCGCCATGGCTGTGG
CAATTGCGTCATCTTATCGAGATAAGGAGATTTCACCGACAGATTGTTTTGTCGGTGAAATCGGATTGACGGGGGAAGTG
CGCCGCGTCAATCGGATCGAAGAACGTGTCAAAGAGGCGGCCAAACTGGGTTTCAAACGGATTTTTGTACCCCGTAACAA
CTTGCAAGGCTGGCATGCGCCAAAAGATATTCAAGTCATTGGTGTTACAAGCATTGCCGAAGCGCTGCATAAGGTCTTTA
ATTAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(69-219)

Subunit ChlI of Mg-chelatase (ChlI)

(363-427)

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

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 mitis NCTC 12261

68.212

99.78

0.681
  radA Streptococcus pneumoniae Rx1

68.212

99.78

0.681
  radA Streptococcus pneumoniae D39

68.212

99.78

0.681
  radA Streptococcus pneumoniae R6

68.212

99.78

0.681
  radA Streptococcus pneumoniae TIGR4

68.212

99.78

0.681
  radA Streptococcus mitis SK321

67.991

99.78

0.678
  radA Bacillus subtilis subsp. subtilis str. 168

64.758

100

0.648