Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   VLL09_RS00280 Genome accession   NZ_CP141531
Coordinates   54340..55728 (+) Length   462 a.a.
NCBI ID   WP_324665013.1    Uniprot ID   A0AB38Z9Y8
Organism   Dehalococcoides mccartyi strain GPTCE1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 49340..60728
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VLL09_RS00275 (VLL09_00275) - 51646..54120 (+) 2475 WP_041340825.1 ATP-dependent Clp protease ATP-binding subunit -
  VLL09_RS00280 (VLL09_00280) radA 54340..55728 (+) 1389 WP_324665013.1 DNA repair protein RadA Machinery gene
  VLL09_RS00285 (VLL09_00285) - 55715..56398 (+) 684 WP_058292929.1 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase -
  VLL09_RS00290 (VLL09_00290) ispF 56404..56877 (+) 474 WP_010935868.1 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase -
  VLL09_RS00295 (VLL09_00295) cysS 56881..58257 (+) 1377 WP_324665016.1 cysteine--tRNA ligase -
  VLL09_RS00305 (VLL09_00305) - 58473..59471 (+) 999 WP_061977596.1 tyrosine-type recombinase/integrase -
  VLL09_RS00310 (VLL09_00310) - 59540..60010 (-) 471 WP_305757282.1 type II toxin-antitoxin system VapC family toxin -

Sequence

Protein


Download         Length: 462 a.a.        Molecular weight: 49493.91 Da        Isoelectric Point: 7.6049

>NTDB_id=917125 VLL09_RS00280 WP_324665013.1 54340..55728(+) (radA) [Dehalococcoides mccartyi strain GPTCE1]
MEKSRRVYVCSNCGRESLKWLGRCPACQEWNTFEEKTVVSPIGRKSEPARVISPAAELSSLQAAETTRRSLSISEFNRVL
GGGIVPGSLMLLGGEPGIGKSTLLLQVAASVAQSGGKVVYVSGEENPAQIKMRAQRLGISGEGLFLMAETDLNAILAQLS
VLCPSLVVIDSIQTVFLPELEAAPGAINQVRESALRLMQWAKSSGASVFITAHVTKEGNIAGPRILEHIVDVVMYFEGES
QSAYRLVRSVKNRFGSTNEVGIFEMKSEGLVEVANPSQIFLSNRQANTVGSAVTAVLEGSRPLLVEVQALTNTTSFGQPR
RTANGVDFNRTLMIAAVLSKRLSMRLGTQDIIVNATGGIRLDEPAADLAIALAIASSYRDTGVCPETIALGEIGLSGELR
TIPHLERRLSEASRLGFKRALVPTGANCHTVHNIQIIPVSTVKEAVKLALTGVKTETEDVFE

Nucleotide


Download         Length: 1389 bp        

>NTDB_id=917125 VLL09_RS00280 WP_324665013.1 54340..55728(+) (radA) [Dehalococcoides mccartyi strain GPTCE1]
ATGGAAAAAAGCCGTAGAGTTTATGTTTGTTCCAACTGCGGGCGTGAGAGCCTGAAATGGCTGGGCCGCTGCCCCGCCTG
TCAGGAGTGGAATACTTTTGAAGAAAAAACGGTTGTTTCGCCCATAGGGCGTAAAAGTGAACCTGCCCGGGTTATCAGCC
CGGCGGCAGAGCTTTCCAGTTTGCAGGCAGCCGAAACTACCCGGCGGAGTTTATCCATTTCGGAGTTTAACCGGGTTTTA
GGCGGCGGTATAGTGCCGGGTTCGCTTATGCTTTTAGGGGGGGAACCGGGCATCGGCAAATCCACTCTGCTTCTTCAGGT
GGCGGCTTCGGTAGCCCAAAGCGGCGGCAAGGTAGTATATGTATCCGGGGAAGAAAACCCCGCCCAGATAAAAATGCGCG
CCCAACGCCTGGGCATCAGCGGCGAAGGGCTTTTCCTTATGGCTGAGACTGACCTTAATGCCATTTTAGCCCAGCTTTCA
GTCCTCTGCCCGTCACTGGTCGTTATTGACTCTATCCAGACTGTATTTCTGCCGGAGCTTGAGGCCGCACCCGGTGCTAT
AAATCAAGTGCGTGAGTCAGCCCTCCGCCTGATGCAGTGGGCTAAAAGCAGCGGAGCCAGCGTATTTATAACCGCCCATG
TCACCAAAGAGGGAAACATAGCCGGGCCGCGCATACTGGAACATATAGTAGATGTGGTCATGTACTTTGAGGGAGAGTCC
CAGAGTGCTTACCGTTTGGTGCGTTCGGTCAAAAACCGCTTCGGTTCTACCAACGAAGTGGGTATATTTGAAATGAAAAG
TGAGGGTCTGGTAGAAGTGGCCAACCCTTCCCAGATATTTTTATCAAACCGCCAGGCAAATACGGTTGGTTCGGCTGTAA
CCGCTGTGCTGGAGGGCAGCCGCCCGCTGCTGGTTGAGGTGCAGGCACTTACCAATACCACCAGTTTCGGTCAGCCCCGC
CGCACCGCCAACGGGGTGGATTTTAACCGCACCCTTATGATAGCCGCTGTCCTCTCCAAACGCCTGTCCATGCGTTTAGG
TACCCAGGACATAATAGTCAACGCTACCGGCGGTATCCGTCTGGATGAGCCGGCCGCAGATTTAGCTATAGCTCTGGCCA
TTGCTTCCAGTTACCGGGATACCGGCGTCTGCCCAGAAACCATTGCTCTGGGGGAGATTGGTCTTTCGGGGGAACTGCGG
ACTATTCCCCATCTGGAAAGGCGTCTTTCCGAGGCCAGCCGTCTGGGTTTTAAGAGGGCTTTAGTACCGACCGGTGCTAA
CTGCCACACTGTACATAATATCCAGATAATTCCGGTTTCAACTGTCAAAGAGGCGGTGAAGCTGGCACTTACCGGGGTAA
AAACGGAGACCGAAGATGTTTTTGAATGA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(63-218)

Subunit ChlI of Mg-chelatase (ChlI)

(342-424)


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

49.891

99.351

0.496
  radA Streptococcus pneumoniae Rx1

48.578

98.918

0.481
  radA Streptococcus pneumoniae D39

48.578

98.918

0.481
  radA Streptococcus pneumoniae R6

48.578

98.918

0.481
  radA Streptococcus pneumoniae TIGR4

48.578

98.918

0.481
  radA Streptococcus mitis SK321

48.578

98.918

0.481
  radA Streptococcus mitis NCTC 12261

48.359

98.918

0.478