Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   VA613_RS04890 Genome accession   NZ_CP141769
Coordinates   1003809..1005164 (+) Length   451 a.a.
NCBI ID   WP_324780736.1    Uniprot ID   -
Organism   Thiobacillus sedimenti strain SCUT-2     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 998809..1010164
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VA613_RS04865 (VA613_04865) pyrF 998953..999651 (+) 699 WP_324780731.1 orotidine-5'-phosphate decarboxylase -
  VA613_RS04870 (VA613_04870) - 999664..1000986 (+) 1323 WP_324780732.1 UDP-glucose/GDP-mannose dehydrogenase family protein -
  VA613_RS04875 (VA613_04875) rfaE1 1000986..1001921 (+) 936 WP_324780733.1 D-glycero-beta-D-manno-heptose-7-phosphate kinase -
  VA613_RS04880 (VA613_04880) rfaD 1001918..1002916 (+) 999 WP_324780734.1 ADP-glyceromanno-heptose 6-epimerase -
  VA613_RS04885 (VA613_04885) cysM 1002913..1003806 (+) 894 WP_324780735.1 cysteine synthase CysM -
  VA613_RS04890 (VA613_04890) radA 1003809..1005164 (+) 1356 WP_324780736.1 DNA repair protein RadA Machinery gene
  VA613_RS04895 (VA613_04895) - 1005200..1005775 (-) 576 WP_324780737.1 nucleoside deaminase -
  VA613_RS04900 (VA613_04900) - 1005829..1007460 (-) 1632 WP_324780738.1 peptide chain release factor 3 -
  VA613_RS04905 (VA613_04905) - 1007731..1008720 (+) 990 WP_324780739.1 hypothetical protein -

Sequence

Protein


Download         Length: 451 a.a.        Molecular weight: 47758.16 Da        Isoelectric Point: 7.9047

>NTDB_id=919304 VA613_RS04890 WP_324780736.1 1003809..1005164(+) (radA) [Thiobacillus sedimenti strain SCUT-2]
MAKAKTIYTCTECGGQSPKWQGQCPACGAWNTLVETVAESARPRFAALAATSQVQLLHDVEASEESRIATDIGELDRVLG
GGLVPGGVTLIGGDPGIGKSTLLLQALAGLSGRLKTLYVSGEESARQVALRARRLSLPETNLPVLPEIRLEAILAQLESM
KPAVAVIDSIQTLYSEALTSAPGSVAQVRECAAQLTRHAKQSGCAIILVGHVTKEGAIAGPRVLEHIVDTVLYFEGDTGS
SFRLVRAFKNRFGAVNEIGVFAMTEKGLKGVSNPSAIFLSRHGEPVPGSCVLVTQEGTRPLLVEIQALVDSSHAPSPRRL
SVGLEQNRLAMLLAVLHRHAGIACFDQDVFVNAVGGVKISEPAADLAVLAAIVSSLRSQPLPDKLVMFGEVGLAGEIRPV
QRGQERLKEAAKLGFTQAIVPAANQPKQKIAGMTVHAVHRLDEAIRLFREG

Nucleotide


Download         Length: 1356 bp        

>NTDB_id=919304 VA613_RS04890 WP_324780736.1 1003809..1005164(+) (radA) [Thiobacillus sedimenti strain SCUT-2]
GTGGCCAAAGCCAAGACGATCTACACTTGCACCGAGTGCGGCGGGCAGTCGCCCAAGTGGCAGGGGCAGTGCCCGGCCTG
CGGCGCCTGGAACACGCTGGTCGAAACGGTCGCTGAATCCGCCAGGCCACGCTTCGCCGCGCTCGCTGCGACGAGCCAGG
TCCAGCTGCTGCATGACGTCGAGGCCTCCGAGGAAAGCCGCATCGCGACCGACATCGGCGAACTCGACCGCGTGCTCGGC
GGCGGCCTGGTGCCAGGCGGCGTCACGCTGATCGGCGGCGACCCCGGCATCGGCAAGTCCACGCTTCTTTTGCAGGCGCT
CGCCGGATTGTCGGGGCGACTGAAGACGCTCTACGTCAGCGGCGAGGAATCGGCGCGCCAGGTCGCGCTGCGCGCGCGGC
GCCTTTCGCTGCCCGAGACGAATCTCCCGGTGCTGCCGGAAATCCGGCTCGAGGCCATCCTCGCGCAGCTCGAATCGATG
AAGCCCGCGGTCGCCGTGATCGACTCGATCCAGACCCTGTATTCCGAGGCGCTGACCTCGGCGCCCGGCTCGGTCGCGCA
GGTGCGCGAATGCGCGGCGCAGCTCACGCGCCATGCCAAGCAGAGCGGCTGCGCGATCATCCTCGTCGGCCATGTCACCA
AGGAAGGCGCGATCGCCGGGCCGCGCGTGCTCGAGCACATCGTCGACACCGTACTGTATTTCGAAGGCGACACCGGCTCC
TCGTTCAGGCTGGTGCGCGCGTTCAAGAACCGCTTCGGCGCGGTCAACGAGATCGGCGTGTTCGCGATGACCGAGAAGGG
CCTCAAGGGCGTGTCCAATCCATCGGCCATCTTTCTCTCGCGCCACGGCGAGCCGGTGCCGGGTTCGTGCGTGCTGGTGA
CGCAGGAAGGCACGCGGCCGCTGCTGGTCGAGATCCAGGCGCTGGTCGATTCCAGCCATGCGCCGAGCCCGCGCCGCCTC
TCGGTGGGCCTGGAGCAGAACCGGCTCGCCATGCTGCTTGCCGTGCTGCACCGCCACGCCGGCATCGCCTGCTTCGACCA
GGACGTGTTCGTGAATGCGGTCGGCGGGGTGAAGATCAGCGAACCGGCCGCCGACCTCGCCGTGCTGGCGGCGATCGTCT
CGTCGCTCCGGAGCCAGCCCTTGCCCGACAAGCTCGTGATGTTCGGCGAGGTCGGCCTGGCCGGCGAGATCCGCCCGGTG
CAGCGCGGCCAGGAGCGCCTCAAGGAAGCGGCCAAGCTCGGCTTCACGCAGGCCATCGTGCCGGCCGCCAACCAGCCGAA
GCAGAAGATCGCCGGCATGACGGTGCACGCAGTGCATCGCCTCGACGAGGCGATTCGCCTGTTCCGGGAAGGCTGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(340-424)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(63-216)


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

50.993

100

0.512
  radA Streptococcus pneumoniae Rx1

46.911

96.896

0.455
  radA Streptococcus pneumoniae D39

46.911

96.896

0.455
  radA Streptococcus pneumoniae R6

46.911

96.896

0.455
  radA Streptococcus pneumoniae TIGR4

46.911

96.896

0.455
  radA Streptococcus mitis SK321

47.018

96.674

0.455
  radA Streptococcus mitis NCTC 12261

46.789

96.674

0.452