Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   D0871_RS16360 Genome accession   NZ_CP033141
Coordinates   3251903..3252577 (-) Length   224 a.a.
NCBI ID   WP_005482037.1    Uniprot ID   Q87T86
Organism   Vibrio parahaemolyticus strain 160807     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 3246903..3257577
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0871_RS16325 (D0871_16325) - 3247172..3248203 (+) 1032 WP_025789362.1 glycosyltransferase family 4 protein -
  D0871_RS16330 (D0871_16330) coaD 3248200..3248679 (+) 480 WP_025789361.1 pantetheine-phosphate adenylyltransferase -
  D0871_RS16335 (D0871_16335) - 3248676..3249599 (+) 924 WP_042771765.1 glycosyl transferase family 90 -
  D0871_RS16340 (D0871_16340) mutM 3249615..3250424 (-) 810 WP_042771767.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  D0871_RS16345 (D0871_16345) - 3250527..3251003 (-) 477 WP_042771769.1 hypothetical protein -
  D0871_RS16350 (D0871_16350) rpmG 3251179..3251349 (-) 171 WP_004410866.1 50S ribosomal protein L33 -
  D0871_RS16355 (D0871_16355) rpmB 3251363..3251599 (-) 237 WP_005467944.1 50S ribosomal protein L28 -
  D0871_RS16360 (D0871_16360) radC 3251903..3252577 (-) 675 WP_005482037.1 DNA repair protein RadC Machinery gene
  D0871_RS16365 (D0871_16365) - 3252691..3254364 (-) 1674 WP_122016055.1 methyl-accepting chemotaxis protein -
  D0871_RS16375 (D0871_16375) coaBC 3254549..3255748 (+) 1200 WP_069506924.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  D0871_RS16380 (D0871_16380) slmA 3255909..3256499 (+) 591 WP_005478760.1 nucleoid occlusion factor SlmA -
  D0871_RS16385 (D0871_16385) - 3256505..3257455 (+) 951 WP_017449076.1 Kdo(2)-lipid IV(A) acyltransferase -

Sequence

Protein


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

>NTDB_id=282399 D0871_RS16360 WP_005482037.1 3251903..3252577(-) (radC) [Vibrio parahaemolyticus strain 160807]
MILKALPNESMPREKLLQRGPQALTDAELLAIFLRTGTQGMNVIELADFLIQDFGSLRQLFSASEQEFCQHKGLGQAKYV
QLQAVLEMTQRYLAETLKRGDALTSPEQTKLYLSSILRDRQREAFYILFLDNQHRVIKDEILFEGTLDAASVYPREVVKR
ALHHNAAALILAHNHPSGVAEPSQADRRITRRLIDALALVDIRILDHFVIGDGESVSFAERGWI

Nucleotide


Download         Length: 675 bp        

>NTDB_id=282399 D0871_RS16360 WP_005482037.1 3251903..3252577(-) (radC) [Vibrio parahaemolyticus strain 160807]
ATGATACTCAAAGCTTTGCCAAATGAGTCGATGCCACGAGAGAAACTTCTGCAACGTGGGCCGCAGGCGTTAACCGATGC
CGAATTACTGGCGATATTCCTCCGTACGGGTACGCAAGGCATGAACGTGATTGAGTTGGCCGATTTCCTTATTCAAGATT
TTGGTTCGCTTAGGCAGCTGTTCTCTGCTTCAGAACAAGAGTTTTGTCAGCATAAAGGGTTAGGGCAGGCCAAATATGTG
CAATTGCAAGCGGTGTTAGAAATGACTCAGCGATATTTGGCGGAAACCCTCAAGCGTGGCGACGCCTTAACCAGCCCTGA
GCAAACTAAATTGTATCTCTCCTCTATATTAAGAGACCGCCAAAGAGAGGCTTTTTACATTCTTTTCCTCGATAACCAAC
ACCGAGTAATAAAAGATGAGATTTTATTCGAAGGAACCTTGGATGCTGCATCAGTTTACCCTAGAGAAGTAGTAAAAAGA
GCCCTGCACCACAACGCGGCTGCTTTGATTTTGGCGCATAACCACCCGTCCGGTGTCGCCGAGCCAAGCCAGGCAGACCG
CAGGATTACAAGGCGATTAATTGATGCGTTGGCGCTGGTGGATATTCGTATTTTGGACCATTTCGTTATTGGCGATGGGG
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