Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   CBDB_RS00270 Genome accession   NC_007356
Coordinates   53999..55393 (+) Length   464 a.a.
NCBI ID   WP_011308691.1    Uniprot ID   A0A916NU34
Organism   Dehalococcoides mccartyi CBDB1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 48999..60393
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CBDB_RS00265 (cbdb_A70) - 51080..53554 (+) 2475 WP_011308690.1 ATP-dependent Clp protease ATP-binding subunit -
  CBDB_RS00270 (cbdb_A72) radA 53999..55393 (+) 1395 WP_011308691.1 DNA repair protein RadA Machinery gene
  CBDB_RS00275 (cbdb_A74) - 55380..56063 (+) 684 WP_011308692.1 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase -
  CBDB_RS00280 (cbdb_A75) ispF 56069..56542 (+) 474 WP_011308693.1 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase -
  CBDB_RS00285 (cbdb_A76) cysS 56546..57919 (+) 1374 WP_011308694.1 cysteine--tRNA ligase -
  CBDB_RS07590 - 58592..58810 (-) 219 Protein_56 zinc ribbon domain-containing protein -
  CBDB_RS00295 (cbdb_A78) - 58960..59661 (-) 702 WP_041218974.1 response regulator transcription factor -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 49406.74 Da        Isoelectric Point: 6.5004

>NTDB_id=24627 CBDB_RS00270 WP_011308691.1 53999..55393(+) (radA) [Dehalococcoides mccartyi CBDB1]
MDKSRNVYICSNCGHESLKWLGRCPGCQEWNTLEETTIAAPLGRKNAPARVISPAAELSSLNASDTTRRSLSISEFNRVL
GGGIVPGSLMLLGGEPGIGKSTLLLQVAASVAQSGGKVVYVSGEENPAQIKMRAQRLGISGEGLFLMAETDLNAILAQLS
VLCPSLVVIDSIQTVFLPELEAAPGAINQVRESALRLMQWAKSSGASVFITAHVTKEGNIAGPRILEHIVDVVMYFEGES
QSAYRLIRSVKNRFGSTNEVGIFEMKSEGLVEVANPSQIFLSNRQANTVGSAVTAVLEGSRPLLVEVQALTNTTSFGQPR
RTANGVDFNRTIMIAAVLSKRLSMRLGTQDIIVNATGGIRLDEPAADLAIALAIASSYRDIGVCPETIALGEIGLSGELR
TIPHLERRLSEASRLGFTRALVPAGANCQNININGIQIIAVSTVKEAIKLALTGVKTETEDVFE

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=24627 CBDB_RS00270 WP_011308691.1 53999..55393(+) (radA) [Dehalococcoides mccartyi CBDB1]
ATGGATAAAAGCCGTAATGTTTATATCTGTTCCAACTGCGGACATGAGAGCCTGAAGTGGCTGGGGCGTTGCCCCGGCTG
TCAGGAATGGAATACTCTTGAAGAAACAACAATTGCTGCACCTCTCGGGCGTAAAAATGCACCTGCCCGGGTTATCAGCC
CGGCAGCCGAGCTTTCCAGTCTGAATGCATCAGATACTACCCGCCGGAGTCTATCTATTTCAGAGTTCAACCGGGTTTTG
GGCGGTGGAATAGTACCGGGTTCACTGATGCTTTTAGGTGGTGAACCGGGTATCGGCAAATCCACGCTCCTTCTTCAGGT
GGCTGCCTCGGTAGCCCAGAGCGGCGGCAAAGTGGTATATGTTTCCGGGGAAGAGAACCCCGCCCAGATAAAAATGCGCG
CTCAGCGTCTGGGTATCAGCGGCGAGGGGCTTTTCCTTATGGCTGAGACAGACCTTAATGCCATTCTAGCCCAGCTTTCA
GTCCTCTGCCCGTCATTGGTTGTTATAGACTCTATCCAGACTGTATTCCTGCCTGAGCTTGAGGCCGCACCCGGTGCTAT
AAATCAGGTGCGTGAATCAGCCCTCCGCCTGATGCAGTGGGCTAAGAGCAGCGGTGCCAGCGTATTTATCACCGCCCATG
TTACCAAAGAGGGCAACATCGCCGGGCCGCGCATACTGGAACACATAGTAGATGTGGTCATGTACTTTGAGGGCGAGTCC
CAGAGTGCTTACCGTTTGATACGTTCGGTCAAAAACCGCTTCGGTTCTACCAACGAAGTAGGCATATTTGAAATGAAAAG
TGAAGGATTGGTGGAAGTAGCCAATCCCTCGCAGATATTTTTATCTAATCGGCAGGCAAACACTGTTGGTTCAGCTGTAA
CAGCAGTGCTGGAGGGTAGCCGCCCTTTACTGGTAGAGGTGCAGGCACTCACCAATACCACCAGTTTCGGCCAGCCGCGC
CGCACGGCCAACGGGGTAGATTTTAACCGTACTATTATGATAGCCGCTGTTCTTTCCAAACGCCTTTCCATGCGGCTGGG
TACCCAGGACATAATAGTAAATGCCACCGGCGGTATTCGTCTGGACGAGCCGGCCGCAGATTTGGCTATTGCTTTGGCCA
TTGCCTCCAGTTACCGTGATATCGGGGTCTGCCCGGAAACCATAGCACTGGGTGAGATTGGCCTTTCAGGGGAACTGAGG
ACAATCCCTCATTTGGAAAGACGTCTTTCCGAGGCCAGCCGTTTGGGTTTTACGAGGGCTTTGGTACCTGCCGGTGCTAA
TTGCCAGAATATAAATATAAATGGTATCCAGATTATTGCGGTTTCAACTGTCAAAGAGGCTATTAAACTGGCGCTTACCG
GGGTAAAAACGGAGACCGAAGATGTTTTTGAATGA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(66-218)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(335-424)


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

50.218

98.707

0.496
  radA Streptococcus pneumoniae Rx1

48.578

98.491

0.478
  radA Streptococcus pneumoniae D39

48.578

98.491

0.478
  radA Streptococcus pneumoniae R6

48.578

98.491

0.478
  radA Streptococcus pneumoniae TIGR4

48.578

98.491

0.478
  radA Streptococcus mitis SK321

48.578

98.491

0.478
  radA Streptococcus mitis NCTC 12261

48.359

98.491

0.476

Multiple sequence alignment