Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   IS178_RS20500 Genome accession   NZ_CP064354
Coordinates   4515615..4516982 (-) Length   455 a.a.
NCBI ID   WP_083369766.1    Uniprot ID   -
Organism   Pseudomonas fragi strain NL20W     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 4510615..4521982
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IS178_RS20480 (IS178_20480) - 4511433..4511987 (+) 555 WP_083369768.1 hypothetical protein -
  IS178_RS20485 (IS178_20485) yjiA 4512084..4513052 (-) 969 WP_016779368.1 GTPase -
  IS178_RS20490 (IS178_20490) - 4513199..4513396 (-) 198 WP_007937254.1 YbdD/YjiX family protein -
  IS178_RS20495 (IS178_20495) - 4513412..4515478 (-) 2067 WP_083369767.1 carbon starvation CstA family protein -
  IS178_RS20500 (IS178_20500) radA 4515615..4516982 (-) 1368 WP_083369766.1 DNA repair protein RadA Machinery gene
  IS178_RS20505 (IS178_20505) - 4517028..4517558 (-) 531 WP_016779365.1 ankyrin repeat domain-containing protein -
  IS178_RS20510 (IS178_20510) katB 4517694..4519235 (-) 1542 WP_016779364.1 catalase KatB -
  IS178_RS20515 (IS178_20515) mscL 4519502..4519915 (+) 414 WP_016779363.1 large-conductance mechanosensitive channel protein MscL -
  IS178_RS20520 (IS178_20520) - 4519986..4520762 (-) 777 WP_016779362.1 ferredoxin--NADP reductase -
  IS178_RS20525 (IS178_20525) - 4521136..4521849 (+) 714 WP_081481012.1 LuxR family transcriptional regulator -
  IS178_RS20530 (IS178_20530) - 4521835..4521975 (-) 141 WP_016779360.1 hypothetical protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 48755.36 Da        Isoelectric Point: 7.1315

>NTDB_id=500997 IS178_RS20500 WP_083369766.1 4515615..4516982(-) (radA) [Pseudomonas fragi strain NL20W]
MAKPKRIYGCTECGATFPKWAGQCGECGVWNTLVETIVESGAAAPPSGRTGWTGQQAQLKTLAEVSIEELPRFSTASGEL
DRVLGGGLVDGSVVLIGGDPGIGKSTILLQTLCQMATRMPALYVTGEESQQQVAMRARRLGLPQDQLKVMTETCIESIIA
TAKLEKPKVMVIDSIQTIFTEQLQSAPGGVSQVRESAALLVRYAKSSGTAIFLVGHVTKEGALAGPRVLEHMVDTVLYFE
GESDGRLRLLRAVKNRFGAVNELGVFGMTDKGLKEVSNPSAIFLTRAQEEVPGSVVMATWEGTRPMLVEVQALVDDSHMS
NPRRVTLGLDQNRLAMLLAVLHRHGGIPTHDQDVFLNVVGGVKVLETASDLALMAAVMSSLRNRPLPHDLLVFGEVGLSG
EVRPVPSGQERLKEAAKHGFKRAIVPKGNAPKESPPGLKVIGVTRLEQALDALFE

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=500997 IS178_RS20500 WP_083369766.1 4515615..4516982(-) (radA) [Pseudomonas fragi strain NL20W]
ATGGCCAAGCCCAAGCGCATTTACGGCTGCACCGAGTGCGGCGCAACGTTTCCCAAGTGGGCCGGACAGTGCGGCGAGTG
CGGCGTCTGGAACACCCTGGTCGAAACCATCGTTGAAAGCGGTGCTGCCGCGCCGCCCAGCGGCCGTACCGGCTGGACCG
GGCAACAGGCCCAGCTCAAGACCCTGGCTGAAGTCAGCATTGAAGAGTTGCCGCGCTTTTCCACGGCCTCCGGCGAGCTG
GACCGGGTGCTCGGTGGCGGGCTGGTGGATGGCTCGGTGGTATTGATCGGCGGCGACCCTGGGATCGGAAAATCCACCAT
CCTGCTGCAAACCCTTTGTCAGATGGCCACCCGCATGCCGGCGCTGTACGTCACCGGCGAGGAATCCCAGCAACAAGTGG
CCATGCGCGCCCGGCGCCTGGGGTTGCCCCAGGATCAGCTCAAGGTAATGACCGAGACCTGTATCGAAAGCATCATCGCC
ACCGCCAAGCTCGAAAAGCCCAAGGTCATGGTGATTGACTCGATCCAGACCATCTTTACCGAGCAGCTGCAATCGGCCCC
CGGCGGCGTGTCGCAAGTGCGCGAAAGTGCGGCCTTGCTGGTGCGATATGCGAAATCCAGCGGTACGGCGATTTTCCTGG
TGGGCCATGTGACCAAAGAAGGCGCACTGGCCGGGCCGCGGGTGCTGGAGCATATGGTGGATACCGTGCTGTATTTCGAG
GGCGAGTCCGACGGGCGCCTGCGTTTGTTGCGAGCGGTAAAAAACCGTTTTGGCGCGGTCAACGAGCTGGGTGTGTTCGG
CATGACCGATAAGGGCCTGAAAGAAGTCTCCAACCCTTCTGCAATTTTCCTAACCCGTGCTCAGGAAGAAGTCCCGGGCA
GCGTGGTGATGGCCACCTGGGAAGGCACCCGTCCGATGCTGGTGGAGGTGCAGGCGTTGGTGGACGACAGTCATATGTCC
AACCCGCGCCGCGTTACCTTGGGCCTGGATCAGAATCGTCTGGCCATGTTGTTGGCCGTCCTGCATCGCCACGGCGGTAT
TCCTACCCATGACCAGGATGTGTTCCTCAACGTGGTCGGCGGGGTCAAGGTGCTGGAAACCGCCTCTGACCTGGCGTTGA
TGGCCGCCGTAATGTCCAGCCTGCGCAACCGTCCGCTGCCTCACGACCTGTTGGTGTTTGGTGAGGTGGGCTTGTCGGGC
GAAGTGCGTCCGGTGCCAAGCGGTCAGGAGCGGCTTAAAGAAGCGGCCAAGCATGGCTTCAAGCGCGCCATCGTGCCCAA
GGGCAACGCCCCCAAGGAATCGCCGCCGGGCCTGAAGGTGATTGGCGTGACCCGTCTGGAACAGGCGCTGGATGCGTTGT
TCGAGTAG

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(353-429)

AAA domain (AAA_25)

(81-221)

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

49.123

100

0.492
  radA Streptococcus mitis SK321

47.368

100

0.475
  radA Streptococcus mitis NCTC 12261

47.149

100

0.473
  radA Streptococcus pneumoniae Rx1

47.149

100

0.473
  radA Streptococcus pneumoniae D39

47.149

100

0.473
  radA Streptococcus pneumoniae R6

47.149

100

0.473
  radA Streptococcus pneumoniae TIGR4

47.149

100

0.473