Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   IBK_RS00270 Genome accession   NZ_AP014563
Coordinates   54120..55514 (+) Length   464 a.a.
NCBI ID   WP_012983997.1    Uniprot ID   A0A1S6SF54
Organism   Dehalococcoides mccartyi IBARAKI     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 49120..60514
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IBK_RS00265 (IBK_0055) - 51255..53729 (+) 2475 WP_011308690.1 ATP-dependent Clp protease ATP-binding subunit -
  IBK_RS00270 (IBK_0056) radA 54120..55514 (+) 1395 WP_012983997.1 DNA repair protein RadA Machinery gene
  IBK_RS00275 (IBK_0057) - 55501..56184 (+) 684 WP_061976833.1 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase -
  IBK_RS00280 (IBK_0058) ispF 56190..56663 (+) 474 WP_015406720.1 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase -
  IBK_RS00285 (IBK_0059) cysS 56667..58040 (+) 1374 WP_061976835.1 cysteine--tRNA ligase -
  IBK_RS00295 (IBK_0061) - 58256..59215 (+) 960 WP_058316902.1 tyrosine-type recombinase/integrase -
  IBK_RS08140 (IBK_0062) - 59258..59617 (+) 360 WP_081042563.1 CAP domain-containing protein -
  IBK_RS00300 (IBK_0063) - 59641..59934 (-) 294 Protein_58 HNH endonuclease -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 49429.78 Da        Isoelectric Point: 6.6399

>NTDB_id=65900 IBK_RS00270 WP_012983997.1 54120..55514(+) (radA) [Dehalococcoides mccartyi IBARAKI]
MDKSRNVYICSNCGHESLKWLGRCPGCQEWNTLEETTIAAPLGRKNAPARVISPAAELSSLNASDTTRRSLSISEFNRVL
GGGIVPGSLMLLGGEPGIGKSTLLLQVAASVAQSGGKVVYVSGEENPAQIKMRAQRLGISGEGLFLMAETDLNAILAQLS
VLCPSLVVIDSIQTVFLPELEAAPGAINQVRESALRLMQWAKSSGASVFITAHVTKEGNIAGPRILEHIVDVVMYFEGES
QSAYRLIRSVKNRFGSTNEVGIFEMKSEGLVEVANPSQIFLSNRQANTVGSAVTAVLEGSRPLLVEVQALTNTTSFGQPR
RTANGVDFNRTIMIAAVLSKRLSMRLGTQDIIVNATGGIRLDEPAADLAIALAIASSYRDIGVCPETIALGEIGLSGELR
TIPHLERRLSEASRLGFTRALVPAGANCQNINIHGIQIIAVSTVKEAIKLALTGVKTETEDVFE

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=65900 IBK_RS00270 WP_012983997.1 54120..55514(+) (radA) [Dehalococcoides mccartyi IBARAKI]
ATGGATAAAAGCCGTAATGTTTATATCTGTTCCAACTGCGGACATGAGAGCCTGAAGTGGCTGGGGCGTTGCCCCGGCTG
TCAGGAATGGAATACTCTTGAAGAAACAACAATTGCTGCACCTCTCGGGCGTAAAAATGCACCTGCCCGGGTTATCAGCC
CGGCAGCCGAACTTTCCAGTCTGAATGCATCAGATACTACCCGCCGGAGTCTATCTATTTCAGAGTTCAACCGGGTTTTG
GGCGGTGGAATAGTGCCGGGTTCACTGATGCTTTTAGGTGGTGAACCGGGTATCGGCAAATCCACTCTCCTTCTTCAGGT
GGCTGCCTCGGTAGCCCAGAGCGGCGGCAAAGTGGTATATGTTTCCGGGGAAGAGAACCCCGCCCAGATAAAAATGCGCG
CTCAGCGTCTGGGTATCAGCGGCGAGGGGCTTTTCCTTATGGCTGAGACAGACCTTAATGCCATTCTAGCCCAGCTTTCA
GTCCTCTGCCCGTCATTGGTTGTTATAGACTCCATCCAGACTGTATTCCTGCCTGAGCTTGAGGCCGCACCCGGTGCTAT
AAATCAGGTGCGTGAATCAGCCCTCCGCCTGATGCAGTGGGCCAAGAGCAGCGGTGCCAGCGTATTTATTACCGCCCATG
TTACCAAAGAGGGCAACATCGCCGGGCCGCGCATACTGGAACATATAGTAGATGTGGTCATGTACTTTGAGGGTGAGTCC
CAGAGTGCTTACCGTTTGATACGTTCGGTTAAAAACCGTTTCGGTTCTACCAACGAAGTAGGCATATTTGAAATGAAAAG
TGAAGGATTGGTGGAAGTAGCCAATCCCTCGCAGATATTTTTATCTAACCGTCAGGCAAACACGGTTGGTTCAGCTGTAA
CAGCAGTGCTGGAGGGTAGCCGCCCTTTACTGGTAGAGGTGCAGGCACTCACCAATACCACCAGTTTCGGCCAGCCGCGC
CGCACGGCCAACGGGGTAGATTTTAACCGTACTATTATGATAGCCGCTGTTCTTTCCAAACGCCTTTCCATGCGGCTGGG
TACCCAGGACATAATAGTAAATGCCACCGGCGGTATTCGTCTGGACGAGCCGGCCGCAGATTTGGCTATTGCTTTGGCCA
TTGCCTCCAGTTACCGTGATATAGGGGTCTGCCCGGAAACCATAGCACTGGGTGAGATTGGCCTTTCAGGGGAACTGAGG
ACAATCCCTCATTTGGAAAGACGTCTTTCCGAGGCCAGCCGTTTGGGTTTTACGAGGGCTTTGGTACCTGCCGGTGCTAA
TTGCCAGAATATAAATATACATGGTATCCAGATTATTGCGGTTTCAACTGTCAAAGAGGCTATTAAACTGGCGCTTACCG
GGGTAAAAACGGAGACCGAAGATGTTTTTGAATGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(335-424)

AAA domain (AAA_25)

(66-218)

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
  AlphaFold DB A0A1S6SF54

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 mitis SK321

48.578

98.491

0.478
  radA Streptococcus mitis NCTC 12261

48.359

98.491

0.476
  radA Streptococcus pneumoniae TIGR4

48.14

98.491

0.474
  radA Streptococcus pneumoniae R6

48.14

98.491

0.474
  radA Streptococcus pneumoniae Rx1

48.14

98.491

0.474
  radA Streptococcus pneumoniae D39

48.14

98.491

0.474

Multiple sequence alignment