Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   AB3212_RS03450 Genome accession   NZ_OZ061592
Coordinates   664759..666129 (-) Length   456 a.a.
NCBI ID   WP_057784528.1    Uniprot ID   -
Organism   Pediococcus parvulus isolate Pediococcus parvulus CIRM-BIA2501     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 659759..671129
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3212_RS03430 - 660094..660513 (-) 420 WP_057784524.1 Mini-ribonuclease 3 -
  AB3212_RS03435 cysS 660520..661926 (-) 1407 WP_367365010.1 cysteine--tRNA ligase -
  AB3212_RS03440 gltX 662036..663526 (-) 1491 WP_057784526.1 glutamate--tRNA ligase -
  AB3212_RS03445 - 663610..664728 (-) 1119 WP_057784527.1 PIN/TRAM domain-containing protein -
  AB3212_RS03450 radA 664759..666129 (-) 1371 WP_057784528.1 DNA repair protein RadA Machinery gene
  AB3212_RS03455 - 666211..666747 (-) 537 WP_057784529.1 dUTP diphosphatase -
  AB3212_RS03460 - 666946..667272 (+) 327 WP_367365011.1 GNAT family N-acetyltransferase -
  AB3212_RS03465 rpiA 667259..667945 (+) 687 WP_367365012.1 ribose-5-phosphate isomerase RpiA -
  AB3212_RS03470 - 668031..669380 (+) 1350 WP_057784532.1 aminopeptidase C -
  AB3212_RS03475 - 669794..670465 (-) 672 WP_057784533.1 2,3-diphosphoglycerate-dependent phosphoglycerate mutase -

Sequence

Protein


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

>NTDB_id=1166352 AB3212_RS03450 WP_057784528.1 664759..666129(-) (radA) [Pediococcus parvulus isolate Pediococcus parvulus CIRM-BIA2501]
MAKEKTQFVCQNCGYVSPRFLGRCPSCGQWNTLVEERVESEKVNHKARVSFEGNRAKPQLISQVDMSETPRVKTGLDEFN
RVLGGGIVTGSLVLIGGDPGIGKSTLLLQISGQLSETKHRVLYVSGEESAAQIKMRADRLHVASENFYLFPETDMNSIQA
AIKELKPTYVIIDSIQTMQEPDIQSAVGSVAQVREITAELMQIAKTNNITIFIVGHVTKGGAIAGPKILEHMVDTVLYFE
GDLHHTYRILRAVKNRFGSTNELGIFEMRETGLQEVANPSEIFLEERLKDATGSAIVVSMEGTRPILVEVQALITPTTFG
NAKRTASGLDHNRVSLIMAVLEKRANFLLQNQDAYLKAAGGVKLDEPAIDLAIAISIASSYRDKGTDPMDAFVGEIGLTG
EIRRVNRIEQRVAEAQKLGFKRIYLPKNNLQGWTPPTGIEVVGVATLSDALRRIFK

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=1166352 AB3212_RS03450 WP_057784528.1 664759..666129(-) (radA) [Pediococcus parvulus isolate Pediococcus parvulus CIRM-BIA2501]
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