Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   JNX00_RS01525 Genome accession   NZ_CP070223
Coordinates   311566..312945 (-) Length   459 a.a.
NCBI ID   WP_070400250.1    Uniprot ID   -
Organism   Hydrogenophaga sp. YM1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 306566..317945
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNX00_RS01495 (JNX00_01495) rfbA 306969..307874 (-) 906 WP_204743881.1 glucose-1-phosphate thymidylyltransferase RfbA -
  JNX00_RS01500 (JNX00_01500) rfbD 307871..308773 (-) 903 WP_204743882.1 dTDP-4-dehydrorhamnose reductase -
  JNX00_RS01505 (JNX00_01505) rfbB 308770..309834 (-) 1065 WP_204743883.1 dTDP-glucose 4,6-dehydratase -
  JNX00_RS01510 (JNX00_01510) - 309889..310095 (-) 207 WP_204743884.1 zinc-finger domain-containing protein -
  JNX00_RS01515 (JNX00_01515) - 310108..311046 (-) 939 WP_070400248.1 branched-chain amino acid transaminase -
  JNX00_RS01520 (JNX00_01520) - 311091..311519 (-) 429 WP_070400249.1 glycerate kinase -
  JNX00_RS01525 (JNX00_01525) radA 311566..312945 (-) 1380 WP_070400250.1 DNA repair protein RadA Machinery gene
  JNX00_RS01530 (JNX00_01530) - 312956..314002 (-) 1047 WP_070400251.1 nitronate monooxygenase -
  JNX00_RS01535 (JNX00_01535) - 314057..314977 (-) 921 WP_070400252.1 LysR substrate-binding domain-containing protein -
  JNX00_RS01540 (JNX00_01540) - 315050..316705 (+) 1656 WP_204743885.1 FAD-dependent oxidoreductase -
  JNX00_RS01545 (JNX00_01545) - 316733..317716 (+) 984 WP_070400254.1 tripartite tricarboxylate transporter substrate binding protein -

Sequence

Protein


Download         Length: 459 a.a.        Molecular weight: 48334.81 Da        Isoelectric Point: 7.7001

>NTDB_id=538715 JNX00_RS01525 WP_070400250.1 311566..312945(-) (radA) [Hydrogenophaga sp. YM1]
MAKDKTIYTCGECGGTSPRWLGKCPHCGAWNTLVEGVAEGGGAPPKNRFAALAKTSEVMPLSRIEARDVQRTPTGHEELD
RVLGGGIVEGGVVLIGGDPGIGKSTLLLQALDSLQRAGLPTLYVTGEESGAQVALRARRLGIEGSQVQVLAEIQLEKILA
TLDAEKPAIAVIDSIQTVYSDQLTSAPGSVAQVRECAAHLTRAAKASGTAIVLVGHVTKEGALAGPRVLEHMVDTVLYFE
GDTHSSFRLIRAIKNRFGAVNEIGVFAMTEKGLKGVSNPSAIFLSQHAQPVPGSCVMVTLEGTRPLLVELQALVDSGGPS
PRRLSVGLERDRLAMLLAVLHRHAGVACLDQDVFVNAVGGVRISEPAADLGVMLAITSSLRGKPLPKGFLAFGEVGLAGE
VRPAPRGQERLKEAAKLGFSVAVVPKANLPKKNDKAFDGLTVHGVERIEEALDLVRRLE

Nucleotide


Download         Length: 1380 bp        

>NTDB_id=538715 JNX00_RS01525 WP_070400250.1 311566..312945(-) (radA) [Hydrogenophaga sp. YM1]
ATGGCCAAGGACAAGACGATCTACACCTGCGGCGAGTGCGGCGGCACCAGCCCGCGCTGGCTGGGCAAATGCCCGCACTG
CGGCGCCTGGAACACGCTGGTGGAAGGCGTGGCCGAGGGCGGCGGCGCGCCGCCGAAGAACCGCTTCGCGGCGCTGGCCA
AGACCAGCGAGGTGATGCCGCTGTCGCGCATCGAGGCCCGGGACGTGCAGCGCACGCCCACCGGCCACGAGGAGCTGGAC
CGCGTGCTGGGCGGTGGCATCGTCGAGGGCGGCGTGGTGCTGATCGGCGGCGACCCCGGCATCGGCAAGTCCACCCTGCT
GCTGCAGGCCCTCGACAGCCTGCAGCGCGCCGGCCTGCCCACGCTCTACGTGACCGGCGAGGAAAGCGGCGCCCAGGTGG
CGCTGCGCGCGCGCCGGCTCGGCATCGAGGGTTCGCAGGTGCAGGTGCTGGCCGAGATCCAGCTGGAAAAAATCCTGGCC
ACGCTGGACGCCGAGAAGCCCGCCATCGCGGTGATCGACTCGATCCAGACCGTCTATTCCGACCAGCTCACCAGCGCCCC
GGGCTCGGTGGCCCAGGTGCGCGAGTGCGCGGCCCACCTCACGCGCGCGGCCAAGGCCTCGGGCACGGCCATCGTGCTGG
TGGGCCACGTGACCAAGGAAGGCGCACTGGCCGGCCCGCGCGTGCTGGAGCACATGGTGGACACCGTGCTCTATTTCGAA
GGCGATACGCACAGCAGCTTCCGACTGATCCGCGCGATCAAGAACCGCTTCGGCGCGGTCAACGAGATCGGCGTGTTCGC
CATGACCGAAAAAGGCCTCAAGGGCGTGAGCAACCCGAGCGCGATCTTTCTCTCGCAGCACGCCCAGCCGGTGCCGGGCA
GTTGCGTGATGGTCACGCTGGAGGGCACGCGGCCGCTGCTGGTGGAGCTGCAGGCCCTGGTGGACAGCGGCGGCCCCAGC
CCGCGCCGCCTGAGCGTGGGCCTGGAGCGCGACCGCCTGGCCATGCTGCTGGCCGTGCTGCACCGCCACGCGGGCGTGGC
CTGCCTGGACCAGGACGTGTTCGTCAACGCCGTGGGGGGCGTGCGCATCAGCGAGCCCGCGGCCGACCTGGGCGTGATGC
TGGCCATCACCAGCAGCCTGCGCGGCAAGCCGCTGCCCAAGGGCTTCCTGGCCTTCGGCGAGGTGGGCCTGGCCGGCGAG
GTGCGGCCCGCGCCGCGCGGGCAGGAGCGCCTGAAGGAGGCGGCCAAGCTGGGCTTTTCCGTGGCGGTGGTCCCCAAGGC
CAACCTGCCCAAGAAGAACGACAAGGCCTTCGACGGCCTCACCGTGCATGGGGTCGAGCGCATCGAAGAGGCGCTGGATC
TGGTGCGCCGGCTGGAATGA

Domains

Predicted by InterproScan.

KaiC (ATPase)

(73-256)

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

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

48.796

99.564

0.486
  radA Streptococcus pneumoniae Rx1

46.97

100

0.473
  radA Streptococcus pneumoniae D39

46.97

100

0.473
  radA Streptococcus pneumoniae TIGR4

46.97

100

0.473
  radA Streptococcus pneumoniae R6

46.97

100

0.473
  radA Streptococcus mitis NCTC 12261

46.753

100

0.471
  radA Streptococcus mitis SK321

48.26

93.9

0.453