Question: build rna 3d model
0
gravatar for rohit.bioinfo.11
6.7 years ago by
rohit.bioinfo.1110 wrote:

dear all

kindly help me to built 3d model of mRNA and miRNA. can any body suggest me any tool or software by which i can able to built the 3d model.?

rna-seq • 2.7k views
ADD COMMENTlink modified 4.4 years ago by DanielC140 • written 6.7 years ago by rohit.bioinfo.1110
0
gravatar for fabrice.leclerc
6.7 years ago by
France
fabrice.leclerc0 wrote:

I usually hate to answer to a question by another question, but: a 3D model of what and what for ? 

  • RNA 3D Model of the paired region between mRNA and miRNA (seed region) ? 
  • RNP 3D Model of the full mRNA-miRNA-Ago complex ?

N.B.: did you check the structural data available for this kind of system: e.g. PDB ID 3HK2 and related 3D structures ? 

ADD COMMENTlink written 6.7 years ago by fabrice.leclerc0

yes i check the pdb data.basically i need a tool or software by which i can build a 3d model of mRNA and miRNA seed region.i also look over a structure in PDB.i.e 3F73.in which mRNA-miRNA-Ago complex model was given.i need a best tool by which i can be able to build a 3d model. 

ADD REPLYlink written 6.6 years ago by rohit.bioinfo.1110
0
gravatar for vermaakanksha22
6.7 years ago by
United States
vermaakanksha220 wrote:

http://genome.cs.nthu.edu.tw/R3D-BLAST/  Have you tried this? 

ADD COMMENTlink written 6.7 years ago by vermaakanksha220
0
gravatar for DanielC
4.4 years ago by
DanielC140
Canada
DanielC140 wrote:

It's pretty late but you can use these tools:

http://genesilico.pl/

ModeRNA: Comparative modeling

SimRNA: de novo refolding

QRNAs: refinement

ADD COMMENTlink modified 4.4 years ago • written 4.4 years ago by DanielC140
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