Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DMB87_RS05990 Genome accession   NZ_CP029640
Coordinates   1336786..1338162 (+) Length   458 a.a.
NCBI ID   WP_129561877.1    Uniprot ID   -
Organism   Paraburkholderia dokdonensis strain DCT13 isolate rhisosphere     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1331786..1343162
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DMB87_RS05970 - 1332141..1333253 (+) 1113 WP_129563319.1 DUF1853 family protein -
  DMB87_RS05975 thiD 1333296..1334102 (-) 807 WP_129561874.1 bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase -
  DMB87_RS05980 lplT 1334164..1335474 (-) 1311 WP_129561875.1 lysophospholipid transporter LplT -
  DMB87_RS05985 alr 1335695..1336765 (+) 1071 WP_129561876.1 alanine racemase -
  DMB87_RS05990 radA 1336786..1338162 (+) 1377 WP_129561877.1 DNA repair protein RadA Machinery gene
  DMB87_RS05995 - 1338295..1338564 (+) 270 WP_129561878.1 DUF2866 domain-containing protein -
  DMB87_RS06000 - 1338683..1339855 (-) 1173 WP_129563320.1 CaiB/BaiF CoA-transferase family protein -
  DMB87_RS06005 - 1339965..1341914 (-) 1950 WP_129561879.1 ATP-binding cassette domain-containing protein -
  DMB87_RS06010 - 1342094..1342576 (+) 483 WP_129561880.1 glutathione peroxidase -

Sequence

Protein


Download         Length: 458 a.a.        Molecular weight: 48703.08 Da        Isoelectric Point: 6.8885

>NTDB_id=294442 DMB87_RS05990 WP_129561877.1 1336786..1338162(+) (radA) [Paraburkholderia dokdonensis strain DCT13 isolate rhisosphere]
MAKAKTLYICTECGGQAPKWQGQCPACGTWNTLVESVAEPAGNHRFQSLAKSAPVRRLADIEASDVPRFTTGVGEFDRVL
GGGLVAGGVVLIGGDPGIGKSTLLLQSLAQIAAERRALYVSGEESAAQIALRAQRLALLDPGSKASELQLLAEIQLEKIQ
ATIEAEKPDVAVIDSIQTIYSEALTSAPGSVAQVRECAAQLTRIAKQSGTAIIMVGHVTKEGNLAGPRVLEHIVDTVLYF
EGDTHSSFRLVRAFKNRFGAVNELGVFAMTERGLRGVANPSALFLSQHEQSVPGSCVLVTQEGSRPLLVEVQALVDTAQV
PNPRRLAVGLEQNRLALLLAVLHRHAGIGCFDQDVFLNAVGGVKITEPAADLAVLLSIHSSMRNKALPKGLIVFGEVGLA
GEIRPSPRGQDRLKEAAKLGFTCALIPRANAPKQPIEGLNVIAVERIEEAIDRVRELE

Nucleotide


Download         Length: 1377 bp        

>NTDB_id=294442 DMB87_RS05990 WP_129561877.1 1336786..1338162(+) (radA) [Paraburkholderia dokdonensis strain DCT13 isolate rhisosphere]
ATGGCGAAGGCAAAGACGCTCTATATCTGCACCGAATGCGGCGGACAGGCGCCGAAATGGCAAGGACAGTGCCCCGCGTG
CGGCACGTGGAACACGCTGGTGGAGAGCGTCGCGGAGCCAGCCGGCAATCACCGCTTTCAGTCGCTTGCCAAGAGCGCGC
CGGTGCGGCGTCTGGCCGATATCGAAGCGTCCGACGTGCCGCGTTTTACCACGGGTGTCGGCGAGTTCGACCGCGTGTTG
GGCGGTGGACTGGTTGCGGGCGGCGTGGTGCTGATCGGCGGTGATCCAGGCATCGGCAAGTCCACGCTGCTGTTGCAGTC
GCTCGCGCAGATTGCGGCCGAACGGCGCGCGCTCTATGTGAGCGGCGAGGAGTCGGCGGCGCAGATTGCGTTGCGCGCGC
AACGGCTTGCCTTGCTCGATCCGGGTTCGAAAGCGAGCGAGTTGCAATTGCTCGCCGAGATTCAGCTCGAAAAAATCCAG
GCGACCATCGAGGCCGAAAAGCCCGACGTCGCCGTGATCGACTCTATCCAGACGATCTATTCCGAGGCGCTCACCTCCGC
ACCCGGGTCGGTGGCGCAGGTGCGCGAGTGCGCCGCGCAACTCACGCGCATCGCCAAGCAGTCGGGCACGGCCATCATCA
TGGTTGGCCACGTGACGAAGGAGGGCAATCTCGCGGGCCCGCGCGTGCTGGAGCACATCGTCGATACGGTGCTGTACTTC
GAGGGCGATACGCATTCGTCGTTCCGGCTCGTGCGCGCGTTCAAGAACCGCTTCGGCGCGGTCAATGAATTGGGCGTGTT
CGCGATGACCGAGCGCGGGTTGCGTGGCGTCGCCAATCCGTCGGCGCTTTTTCTCTCGCAGCACGAGCAAAGCGTGCCGG
GCTCTTGCGTACTGGTGACCCAGGAGGGCTCGCGGCCGTTGCTCGTGGAAGTGCAGGCGCTCGTCGATACGGCGCAGGTG
CCCAATCCGCGCCGCCTTGCGGTCGGGCTGGAACAGAACCGCCTCGCGCTGCTGCTGGCGGTGCTGCATCGTCATGCGGG
CATCGGCTGCTTCGATCAGGACGTATTCTTGAACGCGGTGGGCGGCGTGAAAATCACCGAACCGGCCGCCGACCTCGCCG
TGCTGCTTTCCATCCATTCATCGATGCGTAACAAGGCGTTGCCAAAGGGCCTGATCGTTTTCGGCGAAGTGGGGCTTGCC
GGTGAGATCCGACCCTCGCCGCGCGGGCAGGATCGCTTGAAGGAAGCGGCCAAGCTCGGTTTCACCTGCGCGCTGATTCC
CCGCGCCAATGCGCCGAAACAGCCGATCGAGGGATTGAACGTCATTGCCGTGGAGCGGATCGAGGAAGCCATCGACCGCG
TGCGCGAGCTCGAGTAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(79-222)

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

50.108

100

0.504
  radA Streptococcus mitis SK321

48.472

100

0.485
  radA Streptococcus pneumoniae Rx1

48.156

100

0.485
  radA Streptococcus pneumoniae D39

48.156

100

0.485
  radA Streptococcus pneumoniae R6

48.156

100

0.485
  radA Streptococcus pneumoniae TIGR4

48.156

100

0.485
  radA Streptococcus mitis NCTC 12261

48.14

99.782

0.48

Multiple sequence alignment