Load one of the examples:

Model your RNA

Please run max. 2 jobs at the same time. If you need to run more jobs, please consider installing SimRNA locally at your own computer. Sorry for any inconvenience!
In the queue there are 3 jobs and 3 currently running at the cluster.
To process your job it might take up to 2 days, 4 hours.
(2 jobs at the same time, avg. job 6-10h, if the cluster is free)

The mailing system is fixed now.
E-mail address is optional

Please, remember an RNA sequence OR an RNA structure is required to do prediction.

RNA structure (in the PDB format) to use in the simulation (as a starting point) [optional]:
Select file Change Remove
e.g. A:1-10,15,25-30 ; B:1-10 residues to freeze (they do not move in the simulation). Keep empty to allow moving all residues.

Restraints (in the SimRNA restraints format, text file, read more) [optional]
Select file Change Remove
restraints file loaded unmodified_tRNAPhe_restraints.txt

Advanced parameters

Number of steps simulation:
default = 500; max = 1000; min = 10, use only for a short RNA and testing
% of the lowest energy frames taken to clustering:
e.g. 1 (default value) indicates that 1% of the lowest energy frames of an input trafl will be subjected for clustering (where the remaining frames will be ignored)

What do you want to model?