Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   PSYTB_RS23910 Genome accession   NZ_CP042804
Coordinates   5146311..5147678 (-) Length   455 a.a.
NCBI ID   WP_002555235.1    Uniprot ID   A0A108WX83
Organism   Pseudomonas amygdali pv. tabaci str. ATCC 11528     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 5141311..5152678
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYTB_RS23890 (PSYTB_23895) yjiA 5142262..5143239 (-) 978 WP_005780816.1 GTPase -
  PSYTB_RS23895 (PSYTB_23900) - 5143335..5143532 (-) 198 WP_002555232.1 YbdD/YjiX family protein -
  PSYTB_RS23900 (PSYTB_23905) - 5143560..5145635 (-) 2076 WP_002555233.1 carbon starvation CstA family protein -
  PSYTB_RS23905 (PSYTB_23910) - 5145922..5146296 (+) 375 WP_005745351.1 PilZ domain-containing protein -
  PSYTB_RS23910 (PSYTB_23915) radA 5146311..5147678 (-) 1368 WP_002555235.1 DNA repair protein RadA Machinery gene
  PSYTB_RS23915 (PSYTB_23920) mscL 5147873..5148319 (+) 447 WP_002555236.1 large-conductance mechanosensitive channel protein MscL -
  PSYTB_RS23925 (PSYTB_23930) - 5148835..5149611 (-) 777 WP_004655524.1 ferredoxin--NADP reductase -
  PSYTB_RS23930 (PSYTB_23935) - 5149948..5150181 (+) 234 WP_005745352.1 helix-turn-helix transcriptional regulator -
  PSYTB_RS23935 (PSYTB_23940) - 5150312..5151436 (+) 1125 WP_005745354.1 class I SAM-dependent methyltransferase -
  PSYTB_RS23940 (PSYTB_23945) - 5151523..5151690 (-) 168 WP_002555239.1 DUF2474 domain-containing protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 48913.48 Da        Isoelectric Point: 7.1316

>NTDB_id=378667 PSYTB_RS23910 WP_002555235.1 5146311..5147678(-) (radA) [Pseudomonas amygdali pv. tabaci str. ATCC 11528]
MAKAKRLYGCTECGATFPKWAGQCSECGAWNTLVETMIESGAAAPPTGRTGWTGSQAQIRTLAEVSVEEIPRFSTNSTEL
DRVLGGGLVDGSVVLIGGDPGIGKSTILLQTLCNIAQRMPALYVTGEESQQQVAMRARRLGLPQDKLRVMTETCIETIIA
TAKVEKPKVMVIDSIQTIFTEQLQSAPGGVSQVRESAALLVRYAKQSGTAIFLVGHVTKEGALAGPRVLEHMVDTVLYFE
GESDGRLRLLRAVKNRFGAVNELGVFGMTDKGLKEVSNPSAIFLTRAQEEVPGSVVMATWEGTRPMLVEVQALVDDSHMS
NPRRVTLGLDQNRLAMLLAVLHRHGGIPTHDQDVFLNVVGGVKVLETASDLALMAAVMSSLRNRPLPHDLLVFGEVGLSG
EVRPVPSGQERLKEAAKHGFKRAIVPKGNAPKEAPPGLQIIAVTRLEQALDALFE

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=378667 PSYTB_RS23910 WP_002555235.1 5146311..5147678(-) (radA) [Pseudomonas amygdali pv. tabaci str. ATCC 11528]
ATGGCCAAGGCCAAACGCTTGTACGGCTGCACCGAGTGCGGCGCGACATTTCCCAAGTGGGCGGGCCAGTGCAGCGAATG
CGGTGCCTGGAACACACTGGTCGAAACGATGATTGAGAGTGGCGCTGCTGCGCCGCCCACCGGGCGTACCGGCTGGACCG
GTTCACAGGCGCAAATCAGAACCCTGGCAGAAGTCAGTGTCGAAGAGATTCCGCGCTTCTCCACCAACTCCACCGAGCTC
GACCGAGTGCTGGGCGGCGGGCTGGTTGACGGCTCGGTGGTGCTGATTGGCGGCGACCCCGGCATCGGCAAGTCGACAAT
TCTGTTGCAGACACTGTGCAATATCGCCCAGCGCATGCCCGCGCTGTATGTCACCGGCGAGGAATCCCAGCAGCAGGTGG
CCATGCGTGCCCGACGCCTGGGGCTGCCGCAGGACAAGCTGCGCGTCATGACTGAAACCTGTATCGAAACCATCATTGCG
ACTGCCAAGGTCGAGAAGCCCAAGGTCATGGTAATCGATTCGATCCAGACGATTTTCACCGAACAGTTGCAGTCAGCACC
GGGCGGCGTGTCGCAGGTTCGCGAAAGCGCGGCCTTGCTGGTGCGCTACGCCAAACAGAGCGGCACGGCGATCTTTCTGG
TTGGTCACGTCACTAAAGAGGGCGCGCTTGCCGGCCCGCGTGTGCTTGAGCACATGGTCGACACCGTATTGTATTTCGAG
GGCGAGTCGGATGGCCGTCTGCGTCTGCTGCGGGCGGTGAAGAATCGCTTCGGCGCGGTGAACGAACTGGGCGTGTTCGG
CATGACCGACAAGGGCCTGAAAGAAGTCTCCAACCCGTCGGCGATTTTTCTCACCCGTGCTCAGGAAGAAGTGCCGGGCA
GTGTGGTCATGGCCACCTGGGAAGGCACGCGGCCGATGCTGGTGGAGGTTCAGGCGCTGGTGGACGACAGCCACATGTCC
AACCCGCGTCGTGTAACGCTGGGTCTGGACCAGAACCGTCTGGCCATGCTCCTGGCGGTCCTGCATCGACATGGCGGTAT
TCCGACTCACGATCAGGACGTGTTTCTCAACGTAGTGGGCGGTGTGAAAGTGCTGGAAACCGCATCCGACCTGGCCTTGA
TGGCTGCGGTGATGTCCAGCCTGCGCAATCGTCCGCTGCCGCATGACTTGCTGGTGTTTGGCGAAGTGGGACTGTCGGGT
GAGGTCAGGCCGGTTCCCAGCGGCCAGGAGCGCCTCAAGGAAGCCGCCAAGCATGGCTTCAAGCGGGCCATCGTACCTAA
AGGCAATGCGCCGAAGGAAGCGCCACCCGGTTTGCAGATCATTGCCGTCACGCGTCTGGAGCAGGCACTGGATGCGTTGT
TCGAATAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(73-221)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(353-429)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A108WX83

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

49.123

100

0.492
  radA Streptococcus pneumoniae Rx1

46.739

100

0.473
  radA Streptococcus pneumoniae R6

46.739

100

0.473
  radA Streptococcus pneumoniae TIGR4

46.739

100

0.473
  radA Streptococcus pneumoniae D39

46.739

100

0.473
  radA Streptococcus mitis SK321

46.93

100

0.47
  radA Streptococcus mitis NCTC 12261

46.711

100

0.468

Multiple sequence alignment