Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   ADU70_RS04520 Genome accession   NZ_CP012275
Coordinates   943694..945064 (-) Length   456 a.a.
NCBI ID   WP_046872019.1    Uniprot ID   -
Organism   Pediococcus damnosus strain TMW 2.1533     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 938694..950064
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ADU70_RS04505 (ADU70_1138) cysS 939031..940437 (-) 1407 WP_046872022.1 cysteine--tRNA ligase -
  ADU70_RS04510 (ADU70_1139) gltX 940597..942084 (-) 1488 WP_046872021.1 glutamate--tRNA ligase -
  ADU70_RS04515 (ADU70_1140) - 942207..943349 (-) 1143 WP_056986242.1 PIN/TRAM domain-containing protein -
  ADU70_RS04520 (ADU70_1141) radA 943694..945064 (-) 1371 WP_046872019.1 DNA repair protein RadA Machinery gene
  ADU70_RS04525 (ADU70_1142) - 945151..945687 (-) 537 WP_046872018.1 dUTP diphosphatase -
  ADU70_RS04530 (ADU70_1143) - 945879..946223 (+) 345 WP_052694540.1 GNAT family N-acetyltransferase -
  ADU70_RS04535 (ADU70_1144) rpiA 946210..946896 (+) 687 WP_046872017.1 ribose-5-phosphate isomerase RpiA -
  ADU70_RS04540 (ADU70_1145) - 946950..948332 (+) 1383 WP_056986241.1 aminopeptidase C -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 49992.65 Da        Isoelectric Point: 8.9819

>NTDB_id=153178 ADU70_RS04520 WP_046872019.1 943694..945064(-) (radA) [Pediococcus damnosus strain TMW 2.1533]
MAKAKTQFVCQNCGYVSPRFLGRCPGCGQWNTLVEERVGAEKENHKARVSFEGKRAKPQILSEVDMSEAPRIKTGLKEFN
RVLGGGIVPGSLVLIGGDPGIGKSTLMLQISGQLSETKRRVLYVSGEESAAQIKMRAERLHVASENFYLFPETDMTNIQD
AIKEVKPSFVIIDSIQTMQEPDIQSAVGSVAQVREVTAELMQIAKTNNITIFIVGHVTKGGAIAGPKILEHMVDTVLYFE
GDLHHTYRILRAAKNRFGSTNELGIFEMRESGLREVANPSEIFLEERLKDATGSAIVVSMEGTRPILVEIQALMTPTTYG
NAKRTATGLDHNRVSLIMAVLEKRANFLLQNQDAYLKAAGGVKLDEPAIDLAIAISIASSYRNIGTDPMDAFVGEIGLTG
EVRRVSRIEQRVAEAQKLGFKRIYIPKNNLQGWTPPTGIKVVGVATLSDALKRVFH

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=153178 ADU70_RS04520 WP_046872019.1 943694..945064(-) (radA) [Pediococcus damnosus strain TMW 2.1533]
ATGGCAAAAGCAAAAACTCAGTTTGTTTGTCAAAACTGCGGGTATGTTTCACCACGTTTCTTGGGCCGTTGTCCAGGCTG
CGGTCAATGGAATACTTTGGTTGAAGAACGCGTGGGCGCTGAGAAAGAAAATCATAAGGCTCGCGTTAGTTTTGAAGGTA
AACGTGCTAAACCACAAATTTTAAGCGAAGTTGATATGTCTGAGGCACCGCGAATTAAAACTGGTTTAAAGGAATTTAAT
CGTGTCTTGGGTGGCGGAATTGTTCCTGGGTCACTGGTCTTGATCGGAGGAGATCCTGGAATTGGAAAGTCTACCTTGAT
GCTCCAAATTTCCGGGCAACTAAGTGAAACAAAACGGCGAGTATTGTATGTTTCTGGTGAAGAAAGTGCTGCTCAAATTA
AGATGCGGGCAGAACGGCTTCATGTAGCAAGTGAAAACTTTTACTTGTTTCCAGAAACAGATATGACTAACATTCAGGAT
GCCATCAAAGAAGTTAAGCCTAGCTTTGTAATTATTGATTCAATTCAAACGATGCAAGAACCAGATATTCAATCGGCGGT
TGGAAGCGTGGCGCAGGTTCGCGAAGTTACAGCCGAATTGATGCAAATTGCTAAAACCAATAACATTACGATTTTTATTG
TGGGACATGTAACAAAAGGTGGCGCAATTGCTGGGCCCAAGATTCTTGAACATATGGTTGATACCGTGCTGTATTTTGAA
GGTGATTTACATCATACTTATCGAATTCTTCGTGCCGCTAAAAACCGGTTTGGATCTACGAATGAGCTTGGAATTTTTGA
AATGCGTGAATCTGGCTTGCGAGAGGTAGCCAATCCTTCAGAAATCTTCTTGGAAGAGCGATTGAAAGATGCAACTGGTT
CGGCAATTGTGGTTTCAATGGAAGGAACACGACCAATTCTAGTGGAGATTCAAGCTCTGATGACGCCAACGACCTATGGG
AATGCTAAACGAACGGCCACTGGATTAGACCATAATCGGGTATCGTTGATTATGGCAGTTTTGGAAAAGCGCGCAAACTT
TTTGTTGCAAAATCAAGATGCTTATCTAAAAGCGGCAGGTGGAGTTAAGTTGGATGAGCCGGCGATTGATTTGGCTATTG
CCATCAGCATTGCGTCTAGTTATCGAAATATCGGGACTGACCCAATGGATGCGTTTGTCGGTGAAATTGGATTAACTGGA
GAAGTGCGTCGGGTAAGTCGAATTGAGCAGCGGGTAGCTGAAGCTCAAAAATTAGGGTTCAAACGAATTTATATACCAAA
GAATAATTTACAGGGGTGGACGCCGCCAACTGGAATCAAGGTTGTTGGGGTGGCAACTTTAAGTGATGCCTTGAAGCGTG
TCTTTCATTAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(72-221)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(362-429)


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

68.132

99.781

0.68
  radA Streptococcus mitis SK321

68.132

99.781

0.68
  radA Streptococcus pneumoniae Rx1

67.912

99.781

0.678
  radA Streptococcus pneumoniae TIGR4

67.912

99.781

0.678
  radA Streptococcus pneumoniae D39

67.912

99.781

0.678
  radA Streptococcus pneumoniae R6

67.912

99.781

0.678
  radA Bacillus subtilis subsp. subtilis str. 168

66.887

99.342

0.664

Multiple sequence alignment