Re: [ccp4bb] Server to find structural similarity between nucleic acid structures

2024-06-24 Thread Deborah Harrus 

Dear Marc,

I'm not sure if there are tools to find global similarity, but you can 
use tools like NASSAM (http://211.25.251.163/nassam/), WebFR3D 
(https://www.bgsu.edu/research/rna/web-applications/webfr3d.html) or 
RAG3D (http://www.biomath.nyu.edu/?q=RAG3D) to do substructure search.


Kind regards,

Deborah

On 24/06/2024 10:05, Marc Graille wrote:

Hello,

I am looking for a server that finds structural similarities between 
the structure of an RNA and all RNA structures present in the PDB, 
pretty much like DALI or PDB-eFold do for proteins.


Does anyone know if such server exists?
Thanks a loot for your help,

Best wishes,

Marc

—
*Marc GRAILLE, PhD*
DR1-CNRS

Head of the team: “Translation and degradation of eukaryotic mRNAs”

Laboratoire de Biologie Structurale de la Cellule  (BIOC); UMR7654; CNRS
*ÉCOLE POLYTECHNIQUE*
91128 PALAISEAU CEDEX
FRANCE
: +33 (0)1 69 33 48 90
https://portail.polytechnique.edu/bioc/en/research/coupling-between-translation-and-mrna-degradation-eukaryotes

*Responses to emails are not expected outside of your normal 
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--
---
Deborah Harrus, Ph.D.
PDBe Archive Project Leader, Biocuration Lead
PDBe - Protein Data Bank in Europe

European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD UK

http://www.PDBe.org
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[ccp4bb] Server to find structural similarity between nucleic acid structures

2024-06-24 Thread Marc Graille 
Hello,

I am looking for a server that finds structural similarities between the 
structure of an RNA and all RNA structures present in the PDB, pretty much like 
DALI or PDB-eFold do for proteins.

Does anyone know if such server exists? 
Thanks a loot for your help,

Best wishes,

Marc 

—
Marc GRAILLE, PhD
DR1-CNRS

Head of the team: “Translation and degradation of eukaryotic mRNAs”

Laboratoire de Biologie Structurale de la Cellule  (BIOC); UMR7654; CNRS
ÉCOLE POLYTECHNIQUE 
91128 PALAISEAU CEDEX
FRANCE 
: +33 (0)1 69 33 48 90
https://portail.polytechnique.edu/bioc/en/research/coupling-between-translation-and-mrna-degradation-eukaryotes

Responses to emails are not expected outside of your normal working hours.






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