Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   DYST_RS08335 Genome accession   NZ_CP089414
Coordinates   1976085..1977467 (-) Length   460 a.a.
NCBI ID   WP_102302487.1    Uniprot ID   -
Organism   Dyella terrae strain Ely Copper Mine     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1971085..1982467
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DYST_RS08305 rpsP 1971146..1971400 (-) 255 WP_038616072.1 30S ribosomal protein S16 -
  DYST_RS08310 (DYST_01702) ffh 1971552..1972925 (-) 1374 Protein_1640 signal recognition particle protein -
  DYST_RS08315 (DYST_01703) ccsA 1973099..1973899 (+) 801 WP_102302483.1 cytochrome c biogenesis protein CcsA -
  DYST_RS08320 (DYST_01704) purU 1973907..1974767 (+) 861 WP_239951258.1 formyltetrahydrofolate deformylase -
  DYST_RS08325 (DYST_01705) - 1974779..1975387 (+) 609 WP_239951260.1 glutathione S-transferase family protein -
  DYST_RS08330 (DYST_01706) - 1975404..1975967 (-) 564 WP_239951262.1 hypothetical protein -
  DYST_RS08335 (DYST_01707) radA 1976085..1977467 (-) 1383 WP_102302487.1 DNA repair protein RadA Machinery gene
  DYST_RS08340 (DYST_01708) alr 1977587..1978675 (-) 1089 WP_102302608.1 alanine racemase -
  DYST_RS08345 (DYST_01709) - 1978876..1979091 (-) 216 WP_239951264.1 hypothetical protein -
  DYST_RS08350 (DYST_01710) - 1979103..1979255 (-) 153 WP_239951265.1 DUF3309 family protein -
  DYST_RS08355 (DYST_01711) - 1979406..1980833 (-) 1428 WP_102302490.1 replicative DNA helicase -
  DYST_RS08360 (DYST_01712) rplI 1981030..1981479 (-) 450 WP_102302491.1 50S ribosomal protein L9 -
  DYST_RS08365 (DYST_01713) rpsR 1981589..1981819 (-) 231 WP_017462785.1 30S ribosomal protein S18 -
  DYST_RS08370 (DYST_01714) rpsF 1981834..1982271 (-) 438 WP_102302492.1 30S ribosomal protein S6 -

Sequence

Protein


Download         Length: 460 a.a.        Molecular weight: 48507.88 Da        Isoelectric Point: 8.0033

>NTDB_id=636857 DYST_RS08335 WP_102302487.1 1976085..1977467(-) (radA) [Dyella terrae strain Ely Copper Mine]
MAKAKTAYVCTDCGAEHSKWQGQCVDCGVWNTLSEIVVQPAVKSAGAARSTAGYAGAAAGSPKVTPLTAVALNAEVRTLT
GIGELDRVLGGGLVDGSVVLIGGDPGIGKSTLLLQMLGTLGSRVPSVYVTGEESLAQVASRAQRLDLPLAPLHALAETCI
ERIIEQALSNRPRVLVIDSIQTIWTELLTAAPGSVSQVRESAAKLTRFAKETGTSVFLVGHVTKEGGIAGPRVLEHMVDA
VLYFEGESGSRFRVLRAFKNRFGAVNELGVFAMSEKGLREVPNPSAIFLSAHSGPTPGSAVMVTREGTRPLLVEVQALVD
QSSLGNPRRVALGLEQNRLAMLLAVLHRHGGVAAYDQDVFVNVVGGIRVQETAADLPVLLAVLSSLRDRPLPEKTIAFGE
VGLSGEIRPVPNGEERLKEAAHHGFQRAIVPKANAPKKAKVGEMEIVAVERLSQAIDACR

Nucleotide


Download         Length: 1383 bp        

>NTDB_id=636857 DYST_RS08335 WP_102302487.1 1976085..1977467(-) (radA) [Dyella terrae strain Ely Copper Mine]
ATGGCCAAAGCCAAGACCGCCTATGTCTGCACCGATTGCGGAGCAGAGCACTCCAAGTGGCAGGGCCAGTGCGTGGACTG
CGGCGTGTGGAACACCCTGAGCGAGATTGTGGTGCAGCCGGCAGTGAAATCGGCGGGTGCGGCGCGCAGCACCGCCGGCT
ATGCCGGTGCCGCCGCCGGCTCGCCCAAGGTGACCCCGCTGACGGCGGTGGCGCTCAATGCGGAAGTACGCACGCTCACC
GGGATCGGCGAGTTGGACCGCGTACTGGGCGGCGGCCTCGTCGACGGCTCGGTGGTGCTGATCGGTGGCGACCCAGGCAT
TGGCAAATCGACGTTGCTGCTGCAGATGCTTGGCACGCTGGGATCTCGGGTGCCCAGCGTCTATGTGACCGGCGAAGAGT
CGCTGGCGCAGGTCGCCTCGCGCGCGCAGCGCCTGGATCTGCCACTGGCGCCGTTGCACGCGCTGGCTGAAACCTGCATC
GAGCGCATCATCGAGCAGGCACTGAGTAATCGTCCGCGTGTTTTGGTGATCGACTCCATCCAGACCATCTGGACCGAGTT
GCTGACCGCCGCGCCGGGATCGGTGAGTCAGGTGCGCGAGTCCGCGGCCAAGCTAACCCGTTTCGCCAAGGAAACCGGCA
CGTCCGTTTTCCTCGTGGGACACGTGACCAAGGAGGGCGGCATCGCCGGTCCGCGCGTACTGGAGCACATGGTGGACGCG
GTGCTGTACTTCGAAGGCGAATCAGGCAGCCGCTTCCGCGTGCTGCGTGCCTTCAAGAATCGCTTCGGTGCGGTAAATGA
GCTGGGCGTGTTCGCTATGTCGGAGAAGGGGCTGCGCGAGGTGCCCAACCCGTCGGCGATCTTCCTGTCCGCGCACAGTG
GGCCGACGCCCGGCAGTGCGGTGATGGTGACGCGCGAAGGTACGCGACCGCTGCTGGTCGAGGTGCAGGCGCTGGTGGAT
CAGTCCTCGTTGGGCAATCCGCGTCGTGTTGCGCTCGGCCTTGAACAGAATCGCCTCGCCATGCTGCTGGCCGTGCTGCA
TCGGCATGGTGGTGTGGCGGCCTACGACCAGGATGTGTTCGTCAATGTGGTTGGTGGTATCCGCGTGCAGGAAACGGCCG
CGGATCTTCCGGTGCTGCTGGCCGTGCTCTCCTCGCTGCGTGATCGCCCGTTGCCGGAGAAAACCATCGCTTTCGGTGAA
GTGGGTTTGTCTGGAGAAATTCGCCCGGTCCCCAATGGTGAGGAGCGCCTGAAAGAAGCGGCGCACCATGGGTTCCAAAG
AGCCATCGTGCCCAAGGCGAATGCACCGAAAAAGGCAAAGGTGGGGGAGATGGAGATCGTCGCGGTGGAGCGGCTCTCTC
AGGCGATCGATGCCTGCCGCTGA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(87-226)

Subunit ChlI of Mg-chelatase (ChlI)

(350-434)


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

48.578

99.348

0.483
  radA Streptococcus pneumoniae Rx1

44.079

99.13

0.437
  radA Streptococcus pneumoniae D39

44.079

99.13

0.437
  radA Streptococcus pneumoniae R6

44.079

99.13

0.437
  radA Streptococcus pneumoniae TIGR4

44.079

99.13

0.437
  radA Streptococcus mitis NCTC 12261

44.079

99.13

0.437
  radA Streptococcus mitis SK321

44.079

99.13

0.437