Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   DSB67_RS00885 Genome accession   NZ_CP030788
Coordinates   188073..188747 (+) Length   224 a.a.
NCBI ID   WP_010650200.1    Uniprot ID   -
Organism   Vibrio campbellii strain DS40M4     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 183073..193747
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DSB67_RS00860 (DSB67_00860) rph 183158..183874 (+) 717 WP_005535312.1 ribonuclease PH -
  DSB67_RS00865 (DSB67_00865) pyrE 184116..184757 (+) 642 WP_005379384.1 orotate phosphoribosyltransferase -
  DSB67_RS00870 (DSB67_00870) - 184828..185778 (-) 951 WP_010650196.1 Kdo(2)-lipid IV(A) acyltransferase -
  DSB67_RS00875 (DSB67_00875) slmA 185784..186374 (-) 591 WP_005434407.1 nucleoid occlusion factor SlmA -
  DSB67_RS00880 (DSB67_00880) coaBC 186535..187734 (-) 1200 WP_010650198.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  DSB67_RS00885 (DSB67_00885) radC 188073..188747 (+) 675 WP_010650200.1 RadC family protein Machinery gene
  DSB67_RS00890 (DSB67_00890) rpmB 189051..189287 (+) 237 WP_005384783.1 50S ribosomal protein L28 -
  DSB67_RS00895 (DSB67_00895) rpmG 189301..189471 (+) 171 WP_004410866.1 50S ribosomal protein L33 -
  DSB67_RS00900 (DSB67_00900) - 189649..190125 (+) 477 WP_010650206.1 hypothetical protein -
  DSB67_RS00905 (DSB67_00905) mutM 190252..191061 (+) 810 WP_010650208.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  DSB67_RS00910 (DSB67_00910) - 191083..191835 (+) 753 WP_010650209.1 glycosyltransferase family 25 protein -
  DSB67_RS00915 (DSB67_00915) coaD 191845..192327 (+) 483 WP_029388862.1 pantetheine-phosphate adenylyltransferase -
  DSB67_RS00920 (DSB67_00920) - 192314..193249 (+) 936 WP_010650212.1 glycosyl transferase family 90 -

Sequence

Protein


Download         Length: 224 a.a.        Molecular weight: 25282.03 Da        Isoelectric Point: 7.1313

>NTDB_id=260523 DSB67_RS00885 WP_010650200.1 188073..188747(+) (radC) [Vibrio campbellii strain DS40M4]
MTLKTLPNESMPREKLLQRGPQALSDAELLAIFLRTGTQGMNVIELSDFLIQDFGSLRQLFSASEKEFCQHKGLGQAKYV
QLQAVLEMTQRYLAETLKRGDALTSPEQTKLYLSSILRGRQREAFYILFLDNQHRVIKDEILFEGTLDAASVYPREVVKR
ALHHNAAALILAHNHPSGVAEPSQADRRITRRLIDALGLVDIRILDHFVIGDGESVSFAERGWI

Nucleotide


Download         Length: 675 bp        

>NTDB_id=260523 DSB67_RS00885 WP_010650200.1 188073..188747(+) (radC) [Vibrio campbellii strain DS40M4]
ATGACACTGAAAACCTTGCCTAACGAGTCCATGCCAAGAGAGAAATTGCTGCAACGCGGTCCGCAAGCGCTATCGGATGC
GGAGTTACTTGCAATTTTCCTACGTACAGGCACGCAAGGCATGAACGTAATAGAGCTTTCTGACTTTCTTATTCAAGACT
TTGGATCACTGCGCCAGCTGTTCTCTGCCTCAGAGAAAGAGTTTTGCCAGCATAAAGGGTTAGGGCAAGCGAAATACGTG
CAGTTACAAGCTGTTTTGGAAATGACGCAACGCTATTTAGCCGAGACATTAAAACGTGGTGATGCGTTAACCAGCCCAGA
ACAAACCAAACTTTATCTTTCCTCTATATTAAGAGGCCGTCAAAGAGAGGCTTTTTACATTCTTTTCTTAGATAACCAAC
ATCGGGTGATAAAAGATGAGATTTTATTCGAAGGTACACTCGATGCTGCATCGGTTTATCCGAGAGAAGTCGTCAAACGC
GCCTTACACCACAACGCTGCTGCATTGATTCTGGCCCACAACCACCCGTCAGGTGTGGCGGAGCCGAGCCAAGCAGACAG
AAGGATTACCCGACGTTTAATCGACGCTTTGGGCCTAGTAGATATTCGAATTTTGGACCATTTCGTTATCGGAGATGGGG
AAAGCGTCTCTTTTGCCGAAAGAGGTTGGATATAA

Domains

Predicted by InterProScan.

RadC-like JAB domain (RadC)

(104-222)

UPF0758 N-terminal (UPF0758_N)

(4-80)


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
  radC Haemophilus influenzae Rd KW20

52.995

96.875

0.513
  ysxA/radC Bacillus subtilis subsp. subtilis str. 168

38.839

100

0.388