Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   BB405_RS12540 Genome accession   NZ_CP016546
Coordinates   2493277..2493945 (+) Length   222 a.a.
NCBI ID   WP_001352775.1    Uniprot ID   -
Organism   Escherichia coli strain O177:H21     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2488277..2498945
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BB405_RS12510 (BB405_12510) yicC 2488296..2489159 (-) 864 WP_000621336.1 YicC/YloC family endoribonuclease -
  BB405_RS12515 (BB405_12515) rph 2489286..2490002 (+) 717 WP_001247093.1 ribonuclease PH -
  BB405_RS12520 (BB405_12520) pyrE 2490068..2490709 (+) 642 WP_000806162.1 orotate phosphoribosyltransferase -
  BB405_RS12525 (BB405_12525) slmA 2490746..2491342 (-) 597 WP_000818601.1 nucleoid occlusion factor SlmA -
  BB405_RS12530 (BB405_12530) dut 2491449..2491907 (-) 459 WP_000976070.1 dUTP diphosphatase -
  BB405_RS12535 (BB405_12535) coaBC 2491885..2493105 (-) 1221 WP_000050139.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  BB405_RS12540 (BB405_12540) radC 2493277..2493945 (+) 669 WP_001352775.1 RadC family protein Machinery gene
  BB405_RS12545 (BB405_12545) rpmB 2494162..2494398 (+) 237 WP_000091955.1 50S ribosomal protein L28 -
  BB405_RS12550 (BB405_12550) rpmG 2494419..2494586 (+) 168 WP_001051798.1 50S ribosomal protein L33 -
  BB405_RS12555 (BB405_12555) mutM 2494684..2495493 (+) 810 WP_001114533.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  BB405_RS12560 (BB405_12560) coaD 2495532..2496011 (-) 480 WP_001171866.1 pantetheine-phosphate adenylyltransferase -
  BB405_RS12565 (BB405_12565) waaA 2496019..2497296 (-) 1278 WP_000891564.1 lipid IV(A) 3-deoxy-D-manno-octulosonic acid transferase -
  BB405_RS12570 (BB405_12570) rfaQ 2497709..2498767 (+) 1059 WP_000360402.1 lipopolysaccharide core heptosyltransferase RfaQ -

Sequence

Protein


Download         Length: 222 a.a.        Molecular weight: 25292.38 Da        Isoelectric Point: 7.9748

>NTDB_id=160619 BB405_RS12540 WP_001352775.1 2493277..2493945(+) (radC) [Escherichia coli strain O177:H21]
MKNNSQLMMPREKMLKFGISALTDVELLALFLRTGTRGKDVLTLAKEMLENFGSLYGLLTSEYEQFSGVHGIGVAKFAQL
KGIAELARRYYNVRMREESPLLSPEMTREFLQSQLTGEEREIFMVIFLDSQHRVITHSRLFSGTLNHVEVHPREIIREAI
KINASALILAHNHPSGCAEPSKADKLITERIIKSCQFMDLRVLDHIVIGRGEYVSFAERGWI

Nucleotide


Download         Length: 669 bp        

>NTDB_id=160619 BB405_RS12540 WP_001352775.1 2493277..2493945(+) (radC) [Escherichia coli strain O177:H21]
GTGAAAAACAATTCACAGCTGATGATGCCGCGCGAAAAAATGCTGAAGTTTGGTATTAGCGCCTTAACGGATGTCGAGCT
GCTGGCGCTATTTCTGCGTACCGGAACGCGCGGTAAAGATGTATTAACCCTGGCAAAAGAGATGCTGGAGAATTTCGGCT
CTCTTTATGGCTTGTTAACCTCTGAATATGAACAATTTAGTGGCGTTCATGGAATTGGCGTGGCGAAATTTGCCCAGTTA
AAGGGGATTGCTGAACTGGCGCGGCGTTACTACAACGTGCGGATGCGTGAAGAAAGCCCTTTACTCAGCCCGGAGATGAC
GAGGGAATTTTTACAAAGCCAGCTCACGGGTGAGGAGCGGGAGATCTTTATGGTGATCTTTCTCGACTCCCAACACCGGG
TTATAACGCATAGCCGTCTTTTTTCCGGCACGCTAAACCATGTTGAAGTCCATCCTCGGGAAATTATCCGCGAAGCGATA
AAAATAAACGCCTCGGCGCTGATCCTTGCACATAATCACCCTTCGGGTTGTGCTGAACCCAGTAAAGCGGATAAACTCAT
TACTGAACGGATAATAAAGAGTTGTCAGTTCATGGATTTACGCGTGCTCGACCATATCGTGATTGGGCGTGGAGAGTATG
TTTCTTTTGCCGAACGCGGCTGGATTTAA

Domains

Predicted by InterProScan.

UPF0758 N-terminal (UPF0758_N)

(7-77)

RadC-like JAB domain (RadC)

(103-220)


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

49.55

100

0.496

Multiple sequence alignment