Project ID: plumID:19.001
Name: RNA SHAPE
Archive: https://github.com/srnas/shape-md/archive/476e47196772e5dc109018bc4c2447c5dc234381.zip (browse)
Checksum (md5): 12877107e2d86627750c4461eae5ac38
Category: bio
Keywords: metadynamics, RNA, ligand binding
PLUMED version: 2.4
Contributor: Giovanni Bussi
Submitted on: 10 Apr 2019
Publication:

PLUMED input files

File Compatible with
plumed-g3.dat tested on v2.6 tested on master

Last tested: 15 Oct 2019, 20:11:24

Project description and instructions
The zip file contains GROMACS topologies and input files together with a plumed example file. Notice that the simulations in the paper were performed using bias exchange metadynamics, and the example input correspond to a single replica (the one where ligand binding to residue 3 was enhanced). Input files for all replicas should be similarly created in order to run a real simulation.

Submission history
[v1] 10 Apr 2019: original submission

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plumeDnest:19.001