Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   COG40_RS20840 Genome accession   NZ_CP024275
Coordinates   3993231..3993899 (-) Length   222 a.a.
NCBI ID   WP_001297375.1    Uniprot ID   P65957
Organism   Escherichia coli O6:H16 strain M9682-C1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 3988231..3998899
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  COG40_RS20810 rfaQ 3988409..3989467 (-) 1059 WP_000360402.1 lipopolysaccharide core heptosyltransferase RfaQ -
  COG40_RS20815 waaA 3989880..3991157 (+) 1278 WP_000891562.1 lipid IV(A) 3-deoxy-D-manno-octulosonic acid transferase -
  COG40_RS20820 coaD 3991165..3991644 (+) 480 WP_001171873.1 pantetheine-phosphate adenylyltransferase -
  COG40_RS20825 mutM 3991683..3992492 (-) 810 WP_001114533.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  COG40_RS20830 rpmG 3992590..3992757 (-) 168 WP_001051798.1 50S ribosomal protein L33 -
  COG40_RS20835 rpmB 3992778..3993014 (-) 237 WP_000091955.1 50S ribosomal protein L28 -
  COG40_RS20840 radC 3993231..3993899 (-) 669 WP_001297375.1 DNA repair protein RadC Machinery gene
  COG40_RS20845 coaBC 3994071..3995291 (+) 1221 WP_000050139.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  COG40_RS20850 dut 3995269..3995727 (+) 459 WP_000976070.1 dUTP diphosphatase -
  COG40_RS20855 slmA 3995834..3996430 (+) 597 WP_000818601.1 nucleoid occlusion factor SlmA -
  COG40_RS20860 pyrE 3996467..3997108 (-) 642 WP_000806177.1 orotate phosphoribosyltransferase -
  COG40_RS20865 rph 3997174..3997890 (-) 717 WP_001247089.1 ribonuclease PH -
  COG40_RS20875 yicC 3998017..3998880 (+) 864 WP_000621336.1 YicC/YloC family endoribonuclease -

Sequence

Protein


Download         Length: 222 a.a.        Molecular weight: 25258.35 Da        Isoelectric Point: 7.9748

>NTDB_id=212542 COG40_RS20840 WP_001297375.1 3993231..3993899(-) (radC) [Escherichia coli O6:H16 strain M9682-C1]
MKNNAQLLMPREKMLKFGISALTDVELLALFLRTGTRGKDVLTLAKEMLENFGSLYGLLTSEYEQFSGVHGIGVAKFAQL
KGIAELARRYYNVRMREESPLLSPEMTREFLQSQLTGEEREIFMVIFLDSQHRVITHSRLFSGTLNHVEVHPREIIREAI
KINASALILAHNHPSGCAEPSKADKLITERIIKSCQFMDLRVLDHIVIGRGEYVSFAERGWI

Nucleotide


Download         Length: 669 bp        

>NTDB_id=212542 COG40_RS20840 WP_001297375.1 3993231..3993899(-) (radC) [Escherichia coli O6:H16 strain M9682-C1]
GTGAAAAACAATGCACAGCTGTTGATGCCGCGCGAAAAAATGCTGAAGTTTGGTATTAGCGCCTTAACGGATGTCGAGCT
GCTGGCGTTATTTCTGCGTACCGGAACGCGCGGTAAAGATGTATTAACCCTGGCAAAAGAGATGCTGGAGAATTTCGGCT
CTCTTTATGGCTTGTTAACCTCTGAATATGAACAATTTAGTGGCGTTCATGGAATTGGCGTAGCGAAATTTGCCCAGTTA
AAGGGGATTGCTGAACTGGCGCGGCGTTACTACAACGTGCGGATGCGTGAAGAAAGCCCTTTACTCAGCCCGGAGATGAC
GCGGGAATTTTTACAAAGCCAGCTCACGGGTGAGGAGCGGGAGATCTTTATGGTGATCTTTCTCGACTCACAACACCGGG
TTATAACGCATAGCCGTCTTTTTTCCGGCACGCTAAACCATGTTGAAGTCCATCCTCGGGAAATTATCCGCGAAGCGATA
AAAATAAACGCCTCGGCGCTGATCCTTGCACATAATCACCCTTCGGGTTGTGCTGAACCCAGTAAAGCGGATAAACTCAT
TACTGAACGGATAATAAAGAGTTGTCAGTTCATGGATTTACGCGTGCTCGACCATATCGTGATTGGGCGTGGAGAGTATG
TTTCTTTTGCCGAACGCGGCTGGATTTAA

Domains

Predicted by InterProScan.

RadC-like JAB domain (RadC)

(103-220)

UPF0758 N-terminal (UPF0758_N)

(9-77)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB P65957

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

49.55

100

0.496

Multiple sequence alignment