Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   PO876_RS00405 Genome accession   NZ_CP117471
Coordinates   87708..89075 (+) Length   455 a.a.
NCBI ID   WP_044661660.1    Uniprot ID   -
Organism   Sphingobium sp. YC-XJ3     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 82708..94075
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PO876_RS00380 (PO876_00380) - 83062..83487 (-) 426 WP_044663047.1 metallopeptidase family protein -
  PO876_RS00385 (PO876_00385) - 83574..83861 (+) 288 WP_044661656.1 4a-hydroxytetrahydrobiopterin dehydratase -
  PO876_RS00390 (PO876_00390) - 83866..84474 (-) 609 WP_044661657.1 hypothetical protein -
  PO876_RS00395 (PO876_00395) - 84471..86804 (-) 2334 WP_274051600.1 patatin-like protein -
  PO876_RS00400 (PO876_00400) - 86920..87618 (-) 699 WP_170825606.1 endonuclease/exonuclease/phosphatase family protein -
  PO876_RS00405 (PO876_00405) radA 87708..89075 (+) 1368 WP_044661660.1 DNA repair protein RadA Machinery gene
  PO876_RS00410 (PO876_00410) - 89087..89602 (+) 516 WP_044661661.1 CvpA family protein -
  PO876_RS00415 (PO876_00415) - 89868..90050 (+) 183 WP_025551144.1 general stress protein CsbD -
  PO876_RS00420 (PO876_00420) - 90169..91491 (+) 1323 WP_044661662.1 aminopeptidase P family protein -
  PO876_RS00425 (PO876_00425) - 91885..93258 (-) 1374 WP_044661663.1 amino acid carrier protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 47725.58 Da        Isoelectric Point: 6.5868

>NTDB_id=785904 PO876_RS00405 WP_044661660.1 87708..89075(+) (radA) [Sphingobium sp. YC-XJ3]
MAKAKRKFVCQQCGTVSGRWQGQCDDCGEWNSIVEEAAETVFSARHDLHSGGRALTLVGLDDKVELPPRTTTGIAEFDRA
LGGGIVSGSATLIGGDPGIGKSTLLLQAAARIASAGHSVAYISGEEASDQVRLRAQRLGLGNAPVQLASATSVRDILTTL
GEGAPPALLIIDSIQTMHSDLIEGAPGTVSQVRASSQELIRFAKQRGTALILVGHVTKDGSIAGPRVLEHMVDTVLSFEG
ERSHQYRILRAIKNRFGGTDEIGVFAMVAEGLEEVANPSALFLTHRDENVTGATVFPALEGTRPVLVEIQALVVRLSSGA
TPRRAVVGWDSGRLAMVLAVLEARCGLSFSTCEVYLNVAGGYRLSDPAADLAVAAALMSALSERPVPADVVLFGEIALSG
EIRPVAHAPLRLREAAKLGFNRAFVPAAVADGVKGISVSGYRALAQLVDQMLGRG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=785904 PO876_RS00405 WP_044661660.1 87708..89075(+) (radA) [Sphingobium sp. YC-XJ3]
ATGGCCAAGGCAAAGCGAAAATTCGTCTGTCAGCAATGCGGCACCGTTTCGGGCCGGTGGCAGGGGCAGTGCGACGATTG
CGGCGAATGGAACAGCATTGTCGAGGAAGCGGCCGAAACGGTCTTTTCCGCCCGCCACGACCTGCATAGCGGCGGCAGGG
CGCTGACGCTGGTGGGGCTGGACGACAAGGTCGAACTGCCGCCCCGCACCACCACCGGCATTGCGGAGTTCGATCGGGCG
CTGGGCGGCGGCATCGTGTCCGGTTCCGCCACGCTGATCGGCGGCGATCCGGGCATAGGCAAGTCGACCCTGCTGTTGCA
GGCGGCCGCGCGCATTGCGTCGGCCGGGCACAGCGTCGCCTATATCAGCGGCGAGGAAGCGTCGGATCAGGTGCGCCTGC
GCGCGCAGCGGCTGGGGCTTGGCAATGCGCCCGTGCAGCTTGCCAGCGCCACTTCCGTGCGCGACATACTGACGACGCTG
GGGGAGGGCGCGCCGCCCGCGCTGCTGATCATCGATTCGATCCAGACGATGCACAGCGACCTGATCGAGGGCGCGCCCGG
CACGGTGAGCCAGGTGCGCGCGTCCAGCCAGGAACTGATCCGCTTCGCCAAGCAGCGCGGCACCGCCCTGATCCTTGTCG
GTCATGTGACCAAGGACGGCAGCATCGCGGGGCCCCGCGTGCTGGAGCATATGGTCGATACGGTGCTGAGCTTCGAGGGA
GAGCGCAGCCACCAATATCGCATCCTGCGCGCGATCAAGAACCGCTTCGGCGGCACGGACGAGATCGGCGTGTTCGCGAT
GGTGGCCGAGGGGCTGGAGGAGGTCGCCAATCCGTCCGCCCTGTTCCTGACCCATCGCGACGAGAATGTGACCGGCGCCA
CCGTCTTTCCGGCGCTGGAAGGGACGCGCCCGGTGCTGGTGGAGATCCAGGCGCTGGTCGTCCGCCTTTCCAGCGGGGCC
ACGCCCCGCCGGGCTGTCGTGGGTTGGGACAGCGGGCGGCTGGCCATGGTGCTGGCCGTGCTGGAGGCGCGCTGCGGCCT
CAGCTTTTCGACCTGCGAAGTCTATCTGAACGTCGCGGGCGGCTATCGCCTGTCGGACCCGGCGGCCGACCTGGCTGTCG
CGGCCGCGCTGATGTCGGCGCTGTCGGAGCGGCCGGTGCCCGCCGATGTCGTCCTGTTCGGGGAAATCGCCTTGTCCGGC
GAAATCCGCCCGGTGGCCCATGCCCCGTTGCGGTTGCGCGAGGCGGCCAAGCTCGGTTTCAACCGCGCTTTCGTTCCCGC
CGCCGTGGCCGATGGGGTCAAGGGCATTTCGGTCAGCGGTTATCGCGCGCTTGCGCAACTTGTTGACCAGATGCTCGGCC
GCGGATAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(82-220)

Subunit ChlI of Mg-chelatase (ChlI)

(343-427)

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 Bacillus subtilis subsp. subtilis str. 168

48.052

100

0.488
  radA Streptococcus mitis NCTC 12261

46.171

100

0.464
  radA Streptococcus pneumoniae Rx1

45.952

100

0.462
  radA Streptococcus pneumoniae D39

45.952

100

0.462
  radA Streptococcus pneumoniae R6

45.952

100

0.462
  radA Streptococcus pneumoniae TIGR4

45.952

100

0.462
  radA Streptococcus mitis SK321

47.356

95.604

0.453