Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   E3Z27_RS24335 Genome accession   NZ_CP046874
Coordinates   5590252..5591619 (-) Length   455 a.a.
NCBI ID   WP_159286003.1    Uniprot ID   -
Organism   Pseudomonas mediterranea strain S58     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 5582331..5596419 5590252..5591619 within 0


Gene organization within MGE regions


Location: 5582331..5596419
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E3Z27_RS24295 (E3Z27_24305) - 5582331..5582855 (+) 525 WP_055128492.1 hypothetical protein -
  E3Z27_RS24300 (E3Z27_24310) - 5583230..5584543 (+) 1314 WP_047702627.1 C4-dicarboxylate transporter DctA -
  E3Z27_RS24305 (E3Z27_24315) - 5584604..5585306 (+) 703 Protein_4855 FadR/GntR family transcriptional regulator -
  E3Z27_RS24310 (E3Z27_24320) - 5585329..5586042 (+) 714 WP_052126414.1 GntR family transcriptional regulator -
  E3Z27_RS24315 (E3Z27_24325) yjiA 5586034..5587002 (-) 969 WP_047702629.1 GTPase -
  E3Z27_RS24320 (E3Z27_24330) - 5587288..5587485 (-) 198 WP_047702630.1 YbdD/YjiX family protein -
  E3Z27_RS24325 (E3Z27_24335) - 5587502..5589566 (-) 2065 Protein_4859 carbon starvation CstA family protein -
  E3Z27_RS24330 (E3Z27_24340) - 5589726..5590082 (+) 357 WP_047702632.1 PilZ domain-containing protein -
  E3Z27_RS24335 (E3Z27_24345) radA 5590252..5591619 (-) 1368 WP_159286003.1 DNA repair protein RadA Machinery gene
  E3Z27_RS24340 (E3Z27_24350) - 5591663..5592211 (-) 549 WP_047702634.1 ankyrin repeat domain-containing protein -
  E3Z27_RS24345 (E3Z27_24355) - 5592285..5593824 (-) 1540 Protein_4863 catalase -
  E3Z27_RS24350 (E3Z27_24360) mscL 5594105..5594518 (+) 414 WP_047702636.1 large-conductance mechanosensitive channel protein MscL -
  E3Z27_RS24355 (E3Z27_24365) - 5594637..5595413 (-) 777 WP_047702637.1 ferredoxin--NADP reductase -
  E3Z27_RS24360 (E3Z27_24370) - 5595706..5596419 (+) 714 WP_047702638.1 autoinducer binding domain-containing protein -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 48800.28 Da        Isoelectric Point: 6.8987

>NTDB_id=409080 E3Z27_RS24335 WP_159286003.1 5590252..5591619(-) (radA) [Pseudomonas mediterranea strain S58]
MAKAKRMYGCTECGSTFPKWAGQCGECGAWNTLTETMVESGGAAAPTGRTGWAGQQTQIKTLAEVSVEEIPRFSTASGEL
DRVLGGGLVDGSVVLIGGDPGIGKSTILLQTLCNIATRMPALYVTGEESQQQVAMRARRLGLPQDQLRVMTETCIETIIA
TARLEKPKVMVIDSIQTIFTEQLQSAPGGVSQVRESAALLVRYAKQSGTAIFLVGHVTKEGALAGPRVLEHMVDTVLYFE
GESDGRLRLLRPVKNRFGAVNELGVFGMTDRGLKEVSNPSAIFLTRAQEEVPGSVVMATWEGTRPMLVEVQALVDDSHLA
NPRRVTLGLDQNRLAMLLAVLHRHGGIPTHDQDVFLNVVGGVKVLETASDLALMAAVMSSLRNRPLPHDLLVFGEVGLSG
EVRPVPSGQERLKEAAKHGFKRAIVPKGNAPKEAPAGLQIIAVTRLEQALDALFE

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=409080 E3Z27_RS24335 WP_159286003.1 5590252..5591619(-) (radA) [Pseudomonas mediterranea strain S58]
ATGGCCAAGGCAAAGCGCATGTACGGCTGCACCGAGTGCGGCTCGACCTTTCCCAAATGGGCTGGCCAGTGCGGTGAGTG
CGGCGCCTGGAATACCTTGACCGAAACCATGGTGGAAAGCGGCGGTGCCGCGGCGCCCACCGGACGCACCGGGTGGGCCG
GCCAGCAGACGCAGATCAAGACCCTGGCCGAAGTCAGCGTCGAGGAGATCCCGCGATTTTCCACCGCGTCCGGTGAACTG
GACCGCGTATTGGGTGGCGGGTTGGTGGACGGCTCCGTGGTCTTGATCGGCGGCGACCCAGGGATCGGCAAATCCACCAT
CCTGCTGCAAACCCTGTGCAACATCGCCACGCGCATGCCGGCGCTGTACGTCACTGGCGAGGAGTCCCAGCAGCAAGTCG
CCATGCGCGCCCGCCGCCTGGGCCTGCCCCAGGATCAGTTGCGGGTCATGACCGAGACCTGCATCGAAACCATCATCGCC
ACGGCGCGCCTGGAAAAGCCCAAGGTGATGGTGATCGACTCGATCCAGACGATTTTCACCGAACAGCTGCAATCGGCGCC
GGGCGGTGTGTCCCAGGTGCGTGAAAGCGCGGCGTTGCTGGTGCGTTACGCCAAGCAGAGCGGCACGGCGATCTTCCTGG
TGGGCCATGTCACCAAGGAAGGTGCGCTGGCAGGGCCGCGGGTGCTGGAGCACATGGTCGATACCGTGTTGTATTTCGAG
GGCGAGTCCGATGGACGCCTGCGCTTGTTGCGGCCGGTGAAGAATCGCTTTGGCGCCGTGAACGAGCTGGGTGTGTTCGG
CATGACCGACAGGGGCTTGAAAGAAGTCTCCAATCCTTCAGCGATCTTTCTGACGCGTGCCCAGGAAGAAGTCCCGGGCA
GCGTGGTCATGGCAACCTGGGAAGGGACTCGGCCGATGTTGGTGGAGGTCCAGGCGCTGGTGGATGACAGTCACCTGGCG
AACCCGCGCCGGGTCACCCTGGGGCTGGATCAGAACCGGCTGGCGATGTTGCTGGCCGTGCTGCATCGACACGGCGGCAT
TCCGACCCACGACCAGGACGTTTTCCTTAACGTGGTGGGCGGGGTGAAGGTGTTGGAAACCGCCTCCGACCTGGCGTTGA
TGGCGGCGGTCATGTCCAGCCTGCGCAACCGGCCGCTGCCCCATGATTTGCTGGTGTTCGGTGAAGTCGGCCTGTCGGGC
GAAGTCCGGCCGGTGCCCAGCGGGCAGGAGCGACTCAAGGAGGCGGCCAAGCATGGCTTCAAACGCGCCATCGTGCCCAA
GGGCAACGCGCCGAAGGAAGCGCCGGCAGGTTTGCAGATCATTGCCGTGACGCGGTTGGAGCAGGCGCTGGATGCGTTGT
TCGAGTAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(80-221)

Subunit ChlI of Mg-chelatase (ChlI)

(353-429)

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

48.578

100

0.488
  radA Streptococcus pneumoniae Rx1

46.087

100

0.466
  radA Streptococcus pneumoniae D39

46.087

100

0.466
  radA Streptococcus pneumoniae TIGR4

46.087

100

0.466
  radA Streptococcus pneumoniae R6

46.087

100

0.466
  radA Streptococcus mitis NCTC 12261

45.87

100

0.464
  radA Streptococcus mitis SK321

46.053

100

0.462

Multiple sequence alignment