Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   AM375_RS04040 Genome accession   NZ_CP021722
Coordinates   346648..347316 (+) Length   222 a.a.
NCBI ID   WP_001297375.1    Uniprot ID   P65957
Organism   Escherichia coli strain AR_0128     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 341648..352316
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AM375_RS04005 (AM375_04000) yicC 341667..342530 (-) 864 WP_000621336.1 YicC/YloC family endoribonuclease -
  AM375_RS04015 (AM375_04010) rph 342657..343373 (+) 717 WP_001247089.1 ribonuclease PH -
  AM375_RS04020 (AM375_04015) pyrE 343439..344080 (+) 642 WP_000806177.1 orotate phosphoribosyltransferase -
  AM375_RS04025 (AM375_04020) slmA 344117..344713 (-) 597 WP_000818601.1 nucleoid occlusion factor SlmA -
  AM375_RS04030 (AM375_04025) dut 344820..345278 (-) 459 WP_000976070.1 dUTP diphosphatase -
  AM375_RS04035 (AM375_04030) coaBC 345256..346476 (-) 1221 WP_000050139.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  AM375_RS04040 (AM375_04035) radC 346648..347316 (+) 669 WP_001297375.1 DNA repair protein RadC Machinery gene
  AM375_RS04045 (AM375_04040) rpmB 347533..347769 (+) 237 WP_000091955.1 50S ribosomal protein L28 -
  AM375_RS04050 (AM375_04045) rpmG 347790..347957 (+) 168 WP_001051798.1 50S ribosomal protein L33 -
  AM375_RS04055 (AM375_04050) mutM 348055..348864 (+) 810 WP_001114543.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  AM375_RS04060 (AM375_04055) coaD 348903..349382 (-) 480 WP_001171866.1 pantetheine-phosphate adenylyltransferase -
  AM375_RS04065 (AM375_04060) waaA 349390..350667 (-) 1278 WP_023282111.1 lipid IV(A) 3-deoxy-D-manno-octulosonic acid transferase -
  AM375_RS04070 (AM375_04065) rfaQ 351080..352138 (+) 1059 WP_000360402.1 lipopolysaccharide core heptosyltransferase RfaQ -

Sequence

Protein


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

>NTDB_id=195164 AM375_RS04040 WP_001297375.1 346648..347316(+) (radC) [Escherichia coli strain AR_0128]
MKNNAQLLMPREKMLKFGISALTDVELLALFLRTGTRGKDVLTLAKEMLENFGSLYGLLTSEYEQFSGVHGIGVAKFAQL
KGIAELARRYYNVRMREESPLLSPEMTREFLQSQLTGEEREIFMVIFLDSQHRVITHSRLFSGTLNHVEVHPREIIREAI
KINASALILAHNHPSGCAEPSKADKLITERIIKSCQFMDLRVLDHIVIGRGEYVSFAERGWI

Nucleotide


Download         Length: 669 bp        

>NTDB_id=195164 AM375_RS04040 WP_001297375.1 346648..347316(+) (radC) [Escherichia coli strain AR_0128]
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