Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   EPB54_RS01285 Genome accession   NZ_CP035701
Coordinates   238936..239610 (+) Length   224 a.a.
NCBI ID   WP_005482037.1    Uniprot ID   Q87T86
Organism   Vibrio parahaemolyticus strain 2012AW-0154     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 233936..244610
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EPB54_RS01260 - 234058..235008 (-) 951 WP_025499274.1 Kdo(2)-lipid IV(A) acyltransferase -
  EPB54_RS01265 slmA 235014..235604 (-) 591 WP_005478760.1 nucleoid occlusion factor SlmA -
  EPB54_RS01270 coaBC 235765..236964 (-) 1200 WP_025504109.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  EPB54_RS01280 - 237149..238822 (+) 1674 WP_031777503.1 methyl-accepting chemotaxis protein -
  EPB54_RS01285 radC 238936..239610 (+) 675 WP_005482037.1 DNA repair protein RadC Machinery gene
  EPB54_RS01290 rpmB 239914..240150 (+) 237 WP_005467944.1 50S ribosomal protein L28 -
  EPB54_RS01295 rpmG 240164..240334 (+) 171 WP_004410866.1 50S ribosomal protein L33 -
  EPB54_RS01300 - 240422..241954 (+) 1533 WP_005489437.1 phosphoethanolamine transferase -
  EPB54_RS01305 - 242024..242500 (+) 477 WP_005462494.1 hypothetical protein -
  EPB54_RS01310 mutM 242603..243412 (+) 810 WP_062905297.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  EPB54_RS01315 coaD 243509..243991 (+) 483 WP_005462497.1 pantetheine-phosphate adenylyltransferase -

Sequence

Protein


Download         Length: 224 a.a.        Molecular weight: 25334.11 Da        Isoelectric Point: 6.6112

>NTDB_id=304208 EPB54_RS01285 WP_005482037.1 238936..239610(+) (radC) [Vibrio parahaemolyticus strain 2012AW-0154]
MILKALPNESMPREKLLQRGPQALTDAELLAIFLRTGTQGMNVIELADFLIQDFGSLRQLFSASEQEFCQHKGLGQAKYV
QLQAVLEMTQRYLAETLKRGDALTSPEQTKLYLSSILRDRQREAFYILFLDNQHRVIKDEILFEGTLDAASVYPREVVKR
ALHHNAAALILAHNHPSGVAEPSQADRRITRRLIDALALVDIRILDHFVIGDGESVSFAERGWI

Nucleotide


Download         Length: 675 bp        

>NTDB_id=304208 EPB54_RS01285 WP_005482037.1 238936..239610(+) (radC) [Vibrio parahaemolyticus strain 2012AW-0154]
ATGATACTCAAAGCTTTGCCAAATGAGTCGATGCCACGAGAGAAACTTCTGCAACGTGGGCCGCAGGCGTTAACCGATGC
CGAATTACTGGCGATATTCCTCCGTACGGGCACGCAAGGCATGAACGTGATTGAGTTGGCCGATTTCCTTATTCAAGATT
TTGGTTCGCTTAGGCAGCTGTTCTCCGCTTCAGAACAGGAGTTTTGTCAGCATAAAGGGTTAGGGCAGGCCAAATATGTG
CAATTGCAAGCGGTGTTAGAAATGACTCAGCGATATTTGGCGGAAACCCTCAAGCGTGGCGACGCCTTAACCAGCCCTGA
GCAAACTAAATTATATCTCTCCTCTATATTAAGAGACCGCCAAAGAGAGGCTTTTTACATTCTTTTCCTCGATAACCAAC
ACCGAGTAATAAAAGATGAGATTTTATTCGAAGGAACCTTGGATGCCGCATCAGTTTACCCTAGAGAAGTAGTAAAAAGA
GCCCTGCACCACAACGCGGCTGCTTTGATTTTGGCGCATAACCACCCGTCCGGTGTCGCCGAGCCAAGCCAGGCAGACCG
CAGGATTACAAGGCGATTAATTGATGCGTTGGCGCTGGTGGATATTCGCATTTTGGACCATTTCGTTATTGGCGATGGGG
AAAGTGTCTCTTTTGCTGAAAGAGGATGGATATAA

Domains

Predicted by InterProScan.

UPF0758 N-terminal (UPF0758_N)

(4-80)

RadC-like JAB domain (RadC)

(104-222)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q87T86

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
  radC Haemophilus influenzae Rd KW20

51.613

96.875

0.5
  ysxA/radC Bacillus subtilis subsp. subtilis str. 168

38.739

99.107

0.384