Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   AB3217_RS02970 Genome accession   NZ_OZ061292
Coordinates   630830..632200 (+) Length   456 a.a.
NCBI ID   WP_057784528.1    Uniprot ID   -
Organism   Pediococcus parvulus isolate Pediococcus parvulus IOEB-9646     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 625830..637200
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3217_RS02945 - 626494..627165 (+) 672 WP_367365654.1 2,3-diphosphoglycerate-dependent phosphoglycerate mutase -
  AB3217_RS02950 - 627579..628928 (-) 1350 WP_057784532.1 aminopeptidase C -
  AB3217_RS02955 rpiA 629014..629700 (-) 687 WP_057784531.1 ribose-5-phosphate isomerase RpiA -
  AB3217_RS02960 - 629687..630013 (-) 327 WP_057784530.1 GNAT family N-acetyltransferase -
  AB3217_RS02965 - 630212..630748 (+) 537 WP_057784529.1 dUTP diphosphatase -
  AB3217_RS02970 radA 630830..632200 (+) 1371 WP_057784528.1 DNA repair protein RadA Machinery gene
  AB3217_RS02975 - 632231..633349 (+) 1119 WP_068806213.1 PIN/TRAM domain-containing protein -
  AB3217_RS02980 gltX 633433..634923 (+) 1491 WP_057784526.1 glutamate--tRNA ligase -
  AB3217_RS02985 cysS 635033..636439 (+) 1407 WP_260274835.1 cysteine--tRNA ligase -
  AB3217_RS02990 - 636446..636865 (+) 420 WP_068806207.1 Mini-ribonuclease 3 -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 50122.58 Da        Isoelectric Point: 7.4492

>NTDB_id=1165733 AB3217_RS02970 WP_057784528.1 630830..632200(+) (radA) [Pediococcus parvulus isolate Pediococcus parvulus IOEB-9646]
MAKEKTQFVCQNCGYVSPRFLGRCPSCGQWNTLVEERVESEKVNHKARVSFEGNRAKPQLISQVDMSETPRVKTGLDEFN
RVLGGGIVTGSLVLIGGDPGIGKSTLLLQISGQLSETKHRVLYVSGEESAAQIKMRADRLHVASENFYLFPETDMNSIQA
AIKELKPTYVIIDSIQTMQEPDIQSAVGSVAQVREITAELMQIAKTNNITIFIVGHVTKGGAIAGPKILEHMVDTVLYFE
GDLHHTYRILRAVKNRFGSTNELGIFEMRETGLQEVANPSEIFLEERLKDATGSAIVVSMEGTRPILVEVQALITPTTFG
NAKRTASGLDHNRVSLIMAVLEKRANFLLQNQDAYLKAAGGVKLDEPAIDLAIAISIASSYRDKGTDPMDAFVGEIGLTG
EIRRVNRIEQRVAEAQKLGFKRIYLPKNNLQGWTPPTGIEVVGVATLSDALRRIFK

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=1165733 AB3217_RS02970 WP_057784528.1 630830..632200(+) (radA) [Pediococcus parvulus isolate Pediococcus parvulus IOEB-9646]
ATGGCAAAAGAAAAGACTCAGTTTGTCTGTCAAAATTGTGGCTACGTTTCGCCTCGATTTTTAGGCCGGTGTCCAAGTTG
TGGTCAATGGAACACTTTGGTTGAAGAGCGGGTTGAAAGCGAAAAAGTTAATCACAAAGCTCGAGTTAGTTTCGAAGGTA
ACCGAGCCAAACCGCAACTAATTAGCCAAGTTGATATGAGTGAAACTCCCCGTGTAAAAACAGGTTTGGATGAGTTTAAC
CGAGTTTTAGGCGGTGGTATTGTAACTGGATCACTTGTTTTGATTGGTGGTGATCCAGGAATCGGAAAATCAACATTGCT
TTTGCAAATTTCTGGTCAACTAAGCGAAACAAAGCATCGCGTTTTATATGTATCTGGGGAAGAAAGTGCTGCCCAAATCA
AAATGCGTGCCGACCGTTTACATGTTGCTAGTGAGAATTTTTATTTGTTCCCAGAAACTGACATGAATAGCATCCAAGCG
GCTATCAAAGAACTCAAACCAACCTATGTGATTATCGATTCGATTCAGACAATGCAGGAGCCGGATATCCAATCTGCTGT
TGGTAGTGTAGCGCAAGTTCGTGAGATCACTGCCGAACTGATGCAGATTGCAAAAACTAACAATATTACAATTTTTATTG
TCGGTCATGTGACTAAGGGCGGTGCAATTGCGGGGCCGAAGATCTTGGAGCATATGGTGGATACAGTTCTTTACTTTGAA
GGCGATTTGCATCACACTTATCGGATTCTTCGGGCCGTAAAGAACCGATTTGGTTCAACTAATGAACTGGGAATTTTTGA
AATGCGTGAAACGGGTTTGCAAGAGGTTGCCAATCCTTCAGAAATTTTCTTGGAAGAACGGCTAAAAGATGCTACGGGTT
CCGCCATCGTGGTTTCAATGGAAGGGACACGACCAATTTTGGTTGAAGTCCAAGCTTTAATCACGCCCACTACTTTTGGT
AATGCAAAACGCACAGCTAGTGGACTGGATCATAACCGAGTTTCTTTGATTATGGCAGTTTTGGAAAAACGGGCTAATTT
TTTGCTGCAGAACCAAGATGCGTATTTAAAAGCTGCCGGTGGTGTCAAGTTGGATGAACCGGCAATTGATTTAGCTATTG
CAATTAGTATTGCGTCTAGTTACCGCGATAAGGGAACGGACCCGATGGACGCATTTGTGGGTGAAATTGGATTGACGGGT
GAAATTCGCCGGGTAAACCGAATTGAACAACGGGTGGCTGAGGCTCAAAAGCTGGGCTTCAAACGTATTTATTTGCCTAA
AAACAACCTTCAAGGATGGACACCACCAACTGGTATCGAGGTTGTGGGTGTCGCAACTTTGTCAGATGCGTTGCGAAGAA
TTTTTAAATAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(73-221)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(363-429)


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 SK321

68.132

99.781

0.68
  radA Streptococcus mitis NCTC 12261

67.912

99.781

0.678
  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

67.329

99.342

0.669

Multiple sequence alignment