Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   Herbaro_RS10300 Genome accession   NZ_CP118632
Coordinates   2246182..2247564 (+) Length   460 a.a.
NCBI ID   WP_275013725.1    Uniprot ID   -
Organism   Herbaspirillum sp. WKF16     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2241182..2252564
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Herbaro_RS10280 (Herbaro_10280) - 2241490..2242551 (+) 1062 WP_275013721.1 uracil-DNA glycosylase -
  Herbaro_RS10285 (Herbaro_10285) - 2242553..2243563 (+) 1011 WP_275013722.1 DUF1853 family protein -
  Herbaro_RS10290 (Herbaro_10290) lplT 2243598..2244866 (-) 1269 WP_275013723.1 lysophospholipid transporter LplT -
  Herbaro_RS10295 (Herbaro_10295) alr 2245058..2246137 (+) 1080 WP_275013724.1 alanine racemase -
  Herbaro_RS10300 (Herbaro_10300) radA 2246182..2247564 (+) 1383 WP_275013725.1 DNA repair protein RadA Machinery gene
  Herbaro_RS10305 (Herbaro_10305) - 2247582..2248151 (-) 570 WP_275013726.1 flagellar protein FlhE -
  Herbaro_RS10310 (Herbaro_10310) - 2248144..2249505 (-) 1362 WP_275013727.1 sensor histidine kinase -
  Herbaro_RS10315 (Herbaro_10315) ompR 2249549..2250310 (-) 762 WP_275013728.1 two-component system response regulator OmpR -
  Herbaro_RS10320 (Herbaro_10320) - 2250493..2250774 (+) 282 WP_275013729.1 hypothetical protein -
  Herbaro_RS10325 (Herbaro_10325) - 2250921..2251580 (-) 660 WP_275013730.1 amino acid ABC transporter permease -
  Herbaro_RS10330 (Herbaro_10330) - 2251667..2252470 (-) 804 WP_275013731.1 cystine ABC transporter substrate-binding protein -

Sequence

Protein


Download         Length: 460 a.a.        Molecular weight: 48744.18 Da        Isoelectric Point: 7.1309

>NTDB_id=794114 Herbaro_RS10300 WP_275013725.1 2246182..2247564(+) (radA) [Herbaspirillum sp. WKF16]
MAKVKTNYTCTECGGINNKWAGQCPACGQWNTLVETLVEPAGGNRYSSQPQSLAQTAPVLSLADIEAIDVPRFGTGIEEF
DRVLGGGLVPGGVALIGGDPGIGKSTLLLQALANISRLKKVLYVSGEESGAQIALRAKRLAVDAGELKLQAEIQLEKILA
TLAEHKPEVAVIDSIQTIYSDALTSAPGSVAQVRECAAQLTRAAKTSGTTIIMVGHVTKEGALAGPRVLEHIVDTVLYFE
GDTHSSFRLVRAFKNRFGAVNELGVFAMTEKGLKGVSNPSALFLSQHENQVPGSCVMVTQEGTRPLLVEIQALVDSSHVP
NARRLSVGLEQNRLAMLLAVLHRHAGIAAFDQDVFINAVGGVKITEPAADLAVLMAINSSMRNKPLPRGLVVFGEVGLAG
EIRPAPRGQERLREAAKLGFSIAVIPKANAPKQAIEGLKVIAVERIDDALQKSREIDDLG

Nucleotide


Download         Length: 1383 bp        

>NTDB_id=794114 Herbaro_RS10300 WP_275013725.1 2246182..2247564(+) (radA) [Herbaspirillum sp. WKF16]
ATGGCCAAGGTCAAGACCAATTACACCTGCACCGAGTGCGGCGGCATCAACAACAAATGGGCGGGGCAATGCCCGGCGTG
CGGACAGTGGAACACCCTGGTCGAGACGCTGGTCGAGCCCGCCGGCGGCAACCGCTATTCCTCGCAGCCGCAAAGCCTGG
CGCAGACCGCGCCGGTGCTCAGCCTGGCCGATATCGAGGCGATCGACGTGCCACGCTTCGGCACCGGCATCGAAGAGTTC
GACCGCGTGCTGGGCGGCGGCCTGGTGCCGGGCGGGGTGGCGCTGATCGGCGGCGACCCGGGCATCGGCAAGTCGACCCT
GCTGCTGCAGGCGCTGGCCAACATCTCCAGGCTCAAGAAGGTGCTGTACGTGAGCGGCGAGGAGTCCGGCGCGCAGATCG
CGCTGCGCGCCAAGCGGCTGGCGGTGGATGCGGGCGAACTGAAGCTGCAGGCCGAGATCCAGCTGGAGAAGATCCTGGCC
ACGCTGGCCGAGCACAAGCCCGAGGTGGCGGTGATCGATTCCATCCAGACCATCTACTCCGACGCGCTGACCTCGGCGCC
CGGCTCGGTGGCCCAGGTGCGAGAATGCGCCGCCCAGCTCACGCGCGCGGCCAAGACCTCCGGCACCACCATCATCATGG
TCGGCCACGTGACCAAGGAAGGTGCGCTTGCAGGCCCGCGCGTGCTGGAGCACATCGTCGACACGGTGCTGTACTTCGAG
GGCGACACCCATTCCAGCTTCCGCCTGGTGCGGGCGTTCAAGAACCGCTTCGGCGCGGTCAACGAGCTGGGCGTGTTCGC
GATGACGGAGAAGGGCCTGAAGGGCGTCTCCAACCCGTCGGCGCTGTTCCTGTCGCAGCATGAGAACCAGGTGCCCGGTT
CCTGCGTGATGGTGACGCAGGAAGGCACGCGCCCGCTGCTGGTGGAGATCCAGGCGCTGGTCGACAGCTCGCACGTGCCC
AACGCGCGCCGCCTGTCGGTGGGCTTGGAGCAGAACCGGCTGGCCATGCTGCTGGCGGTATTGCACCGCCATGCCGGCAT
TGCCGCGTTCGACCAGGACGTCTTCATCAACGCCGTGGGTGGGGTCAAGATCACCGAGCCGGCGGCCGACCTGGCGGTGC
TCATGGCGATCAACTCCTCGATGCGCAACAAGCCGCTGCCACGCGGCCTGGTGGTGTTCGGGGAGGTCGGCCTGGCCGGC
GAGATCCGTCCGGCGCCGCGCGGGCAGGAGCGCCTGCGCGAGGCCGCCAAGCTGGGCTTCTCGATCGCAGTGATCCCCAA
GGCCAACGCGCCCAAGCAAGCGATCGAAGGCCTGAAGGTGATTGCGGTGGAGCGCATCGACGATGCGCTGCAGAAGTCGC
GCGAGATCGACGATCTCGGCTGA

Domains

Predicted by InterproScan.

Lon protease (S16) C-terminal proteolytic domain (Lon_C)

(360-452)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(77-221)


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

48.701

100

0.489
  radA Streptococcus mitis SK321

47.817

99.565

0.476
  radA Streptococcus pneumoniae D39

47.921

99.348

0.476
  radA Streptococcus pneumoniae TIGR4

47.921

99.348

0.476
  radA Streptococcus pneumoniae R6

47.921

99.348

0.476
  radA Streptococcus pneumoniae Rx1

47.921

99.348

0.476
  radA Streptococcus mitis NCTC 12261

47.702

99.348

0.474