Question

build rna 3d model

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9.8 years ago

rohit.bioinfo.11 ▴ 10

Dear all

Kindly help me to build 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 • 3.4k views

ADD COMMENT • link updated 2.4 years ago by Ram 43k • written 9.8 years ago by rohit.bioinfo.11 ▴ 10

Ram · Answer 1 · 2014-07-13

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9.8 years ago

fabrice.leclerc • 0

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 COMMENT • link updated 2.4 years ago by Ram 43k • written 9.8 years ago by fabrice.leclerc • 0

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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 REPLY • link updated 2.4 years ago by Ram 43k • written 9.7 years ago by rohit.bioinfo.11 ▴ 10

Ram · Answer 2 · 2014-07-13

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9.8 years ago

vermaakanksha22 • 0

Have you tried this?

ADD COMMENT • link updated 2.4 years ago by Ram 43k • written 9.8 years ago by vermaakanksha22 • 0

score 0 · Answer 3 · 2016-10-31

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7.5 years ago

DanielC ▴ 170

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

http://genesilico.pl/

ModeRNA: Comparative modeling

SimRNA: de novo refolding

QRNAs: refinement

ADD COMMENT • link 7.5 years ago by DanielC ▴ 170