Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   Dvar_RS33835 Genome accession   NZ_CP159846
Coordinates   7504345..7505709 (+) Length   454 a.a.
NCBI ID   WP_419657536.1    Uniprot ID   -
Organism   Desulfosarcina variabilis str. Montpellier     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 7499345..7510709
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Dvar_RS33805 (Dvar_66780) - 7500164..7500394 (-) 231 WP_419664201.1 excisionase family DNA-binding protein -
  Dvar_RS33810 (Dvar_66790) - 7500653..7501843 (+) 1191 WP_419657532.1 tyrosine-type recombinase/integrase -
  Dvar_RS33820 (Dvar_66800) - 7502187..7502423 (-) 237 WP_419657533.1 PLD nuclease N-terminal domain-containing protein -
  Dvar_RS33825 (Dvar_66810) - 7502430..7503239 (-) 810 WP_419657534.1 lytic murein transglycosylase -
  Dvar_RS33830 (Dvar_66820) - 7503354..7504142 (-) 789 WP_419657535.1 histidinol-phosphatase HisJ family protein -
  Dvar_RS33835 (Dvar_66830) radA 7504345..7505709 (+) 1365 WP_419657536.1 DNA repair protein RadA Machinery gene
  Dvar_RS33840 (Dvar_66840) - 7505813..7506415 (+) 603 WP_419657537.1 RlmE family RNA methyltransferase -
  Dvar_RS33845 (Dvar_66850) - 7506427..7507170 (+) 744 WP_419657538.1 YebC/PmpR family DNA-binding transcriptional regulator -
  Dvar_RS33850 (Dvar_66860) nadA 7507506..7508402 (-) 897 WP_419657539.1 quinolinate synthase NadA -
  Dvar_RS33855 (Dvar_66870) - 7508461..7509129 (-) 669 WP_419657540.1 LolA family protein -
  Dvar_RS33860 (Dvar_66880) - 7509269..7510189 (-) 921 WP_419657541.1 hypothetical protein -

Sequence

Protein


Download         Length: 454 a.a.        Molecular weight: 48548.51 Da        Isoelectric Point: 6.9557

>NTDB_id=1016197 Dvar_RS33835 WP_419657536.1 7504345..7505709(+) (radA) [Desulfosarcina variabilis str. Montpellier]
MARKSIKTLFVCQACGYESAKWLGRCTECGGWDTFVEAVKKPKTSGVRSMAAKGNAPVPIDAVEIVDEERLSTGIGEFDR
VLGGGLVAGTLILIGGDPGIGKSTLMLQALHGIARAGHKVLYVSGEESVRQLRLRSHRLGTASPTLLVVSEIDIDAVMTM
VVNETPDVLVVDSIQTMFSPEITSAPGSVSQVRESTMQLMLMAKRTGIPTFLVGHVTKEGAIAGPRLLEHMVDTVLYFEG
DRNHVFRILRAVKNRFGSTNEIGVFEMKAQGLCEVANPSAVFLSERPENAAGSVVTASIEGTRPILVELQALASSTNLGT
PRRTILGLDPNRVALLVAVMEKQLGMHLMGHDIFMNVAGGVKIMEPAVDLGIVAAIASSFLDRPIHKDTLAIGEVGLAGE
VRAVGNLETRIMEAQKMGFSRCVVPKGSLKRLPRTQGIQLEGVDTVGDAMELLF

Nucleotide


Download         Length: 1365 bp        

>NTDB_id=1016197 Dvar_RS33835 WP_419657536.1 7504345..7505709(+) (radA) [Desulfosarcina variabilis str. Montpellier]
ATGGCACGAAAAAGCATAAAAACCCTGTTTGTCTGCCAGGCTTGCGGGTATGAATCAGCCAAATGGCTGGGTCGCTGCAC
GGAATGCGGCGGCTGGGATACCTTTGTCGAAGCGGTGAAAAAGCCCAAGACATCCGGCGTTCGGTCCATGGCCGCCAAGG
GCAATGCCCCGGTTCCCATCGATGCCGTGGAAATCGTCGATGAAGAGCGGCTGTCCACGGGAATCGGCGAGTTTGACCGT
GTGCTGGGAGGCGGTCTGGTGGCCGGCACCCTGATATTGATCGGTGGTGATCCGGGGATCGGCAAATCCACACTGATGCT
CCAGGCCCTGCACGGCATCGCCAGGGCCGGCCATAAGGTTCTGTACGTGTCCGGAGAAGAGTCGGTGCGTCAGCTGCGCC
TTCGTAGCCACCGGCTGGGCACGGCCTCCCCCACCCTGTTGGTGGTGTCGGAAATCGATATCGATGCGGTGATGACCATG
GTGGTAAATGAAACCCCCGACGTCCTGGTGGTGGATTCCATTCAGACCATGTTCAGCCCGGAAATCACCTCTGCCCCGGG
TAGTGTCAGCCAGGTACGCGAATCCACCATGCAGCTGATGCTGATGGCCAAACGTACCGGCATCCCCACGTTCCTGGTCG
GCCACGTAACCAAAGAGGGCGCCATTGCCGGCCCGCGGCTGCTGGAACATATGGTCGATACAGTGCTGTATTTCGAGGGG
GATCGCAATCATGTATTCCGAATCCTGCGCGCCGTGAAAAACCGTTTCGGCTCCACCAACGAAATCGGCGTATTTGAAAT
GAAAGCCCAGGGGCTGTGTGAGGTGGCCAATCCATCGGCTGTATTTTTGTCCGAACGCCCGGAGAATGCCGCCGGATCGG
TGGTCACGGCCAGTATCGAAGGCACCCGGCCGATTCTGGTAGAACTCCAGGCCCTGGCTTCCAGCACCAACCTGGGCACA
CCACGGCGCACCATCTTAGGGCTCGACCCCAACCGCGTGGCGCTCTTGGTGGCGGTGATGGAAAAGCAGCTGGGCATGCA
CCTGATGGGCCATGATATTTTCATGAACGTGGCCGGTGGAGTGAAAATTATGGAACCGGCCGTAGATCTTGGCATTGTAG
CGGCCATTGCCTCCAGTTTTCTGGATCGCCCCATTCACAAAGACACCCTTGCCATCGGTGAGGTGGGCCTGGCCGGCGAA
GTACGGGCCGTGGGGAATCTGGAAACCCGTATCATGGAAGCCCAAAAAATGGGCTTCAGCCGCTGCGTGGTCCCCAAGGG
CAGCTTGAAACGGCTTCCCCGGACCCAAGGGATTCAGCTGGAGGGGGTGGATACGGTCGGCGATGCGATGGAGCTGTTGT
TCTGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(343-426)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(10-37)

AAA domain (AAA_25)

(75-220)


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

56.027

98.678

0.553
  radA Streptococcus mitis NCTC 12261

52.308

100

0.524
  radA Streptococcus pneumoniae Rx1

52.088

100

0.522
  radA Streptococcus pneumoniae D39

52.088

100

0.522
  radA Streptococcus pneumoniae R6

52.088

100

0.522
  radA Streptococcus pneumoniae TIGR4

52.088

100

0.522
  radA Streptococcus mitis SK321

52.088

100

0.522

Multiple sequence alignment