Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   GPY55_RS24365 Genome accession   NZ_CP046831
Coordinates   3001603..3002277 (-) Length   224 a.a.
NCBI ID   WP_005482037.1    Uniprot ID   Q87T86
Organism   Vibrio parahaemolyticus strain 2012AW-0224     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2996603..3007277
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY55_RS24335 coaD 2996632..2997114 (+) 483 WP_029787720.1 pantetheine-phosphate adenylyltransferase -
  GPY55_RS24340 - 2997126..2999144 (-) 2019 WP_083135631.1 alkaline phosphatase family protein -
  GPY55_RS24345 mutM 2999315..3000124 (-) 810 WP_083135630.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  GPY55_RS24350 - 3000227..3000703 (-) 477 WP_021449025.1 hypothetical protein -
  GPY55_RS24355 rpmG 3000879..3001049 (-) 171 WP_004410866.1 50S ribosomal protein L33 -
  GPY55_RS24360 rpmB 3001063..3001299 (-) 237 WP_005467944.1 50S ribosomal protein L28 -
  GPY55_RS24365 radC 3001603..3002277 (-) 675 WP_005482037.1 DNA repair protein RadC Machinery gene
  GPY55_RS24370 - 3002391..3004064 (-) 1674 WP_015296117.1 methyl-accepting chemotaxis protein -
  GPY55_RS24380 coaBC 3004249..3005448 (+) 1200 WP_031846924.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  GPY55_RS24385 slmA 3005609..3006199 (+) 591 WP_005478760.1 nucleoid occlusion factor SlmA -
  GPY55_RS24390 - 3006205..3007155 (+) 951 WP_005496814.1 Kdo(2)-lipid IV(A) acyltransferase -

Sequence

Protein


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

>NTDB_id=356100 GPY55_RS24365 WP_005482037.1 3001603..3002277(-) (radC) [Vibrio parahaemolyticus strain 2012AW-0224]
MILKALPNESMPREKLLQRGPQALTDAELLAIFLRTGTQGMNVIELADFLIQDFGSLRQLFSASEQEFCQHKGLGQAKYV
QLQAVLEMTQRYLAETLKRGDALTSPEQTKLYLSSILRDRQREAFYILFLDNQHRVIKDEILFEGTLDAASVYPREVVKR
ALHHNAAALILAHNHPSGVAEPSQADRRITRRLIDALALVDIRILDHFVIGDGESVSFAERGWI

Nucleotide


Download         Length: 675 bp        

>NTDB_id=356100 GPY55_RS24365 WP_005482037.1 3001603..3002277(-) (radC) [Vibrio parahaemolyticus strain 2012AW-0224]
ATGATACTCAAAGCTTTGCCAAATGAGTCGATGCCACGAGAGAAACTTCTGCAACGTGGGCCGCAGGCGTTAACCGATGC
CGAATTACTGGCGATATTTCTCCGTACGGGTACGCAAGGCATGAACGTGATTGAGTTGGCCGATTTCCTTATTCAAGATT
TTGGTTCGCTTAGGCAGCTGTTCTCTGCTTCAGAACAAGAGTTTTGTCAGCATAAAGGGTTAGGGCAGGCCAAATATGTG
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

Multiple sequence alignment