Changes Need to Achieve Protein and RNA compatibility in Rosetta

Getting Started

Build Documentation

Rosetta Tutorials

Rosetta Basics

• Running Rosetta

• Units in Rosetta

• How Rosetta works

• File Formats in Rosetta

• Non-protein Residues

• Preparing Structures

• Command line options

Rosetta Applications

Rosetta Scripting Interfaces

Development Documentation

Internal Documentation

How to Write Documentation

FAQ

Glossary

RosettaEncyclopedia

Options list

This section used to have tips for reading protein/RNA poses into Rosetta, but is now deprecated

• The standard ResidueTypeSet of Rosetta can handle RNA, DNA, and proteins.
• RNA is read in from PDB lines with 'A','C','G','U' residue names. DNA is read in from PDB lines with 'DA','DC','DG','DT'
• There is a very active effort to now unify the scorefunctions for modeling RNA and proteins to enable structure prediction and design of RNP complexes and machines.

-- Updated R. Das, 2015.

See Also

• RNA: Main guide to using RNA with rosetta
• Non-protein residues: Guide to using non-protein molecules with Rosetta
• Making Rosetta robust against malformed PDBs
• RNA applications: Applications intended for use with RNA
• Residue Params file: File to specify chemical and geometric information for ligands and residues.
• Preparing structures: Preparing typical protein structures for use in Rosetta
• Preparing PDB files for non-peptide polymers
• Preparing PDB files containing protein and RNA
• Running Rosetta with options: Instructions for running Rosetta applications on the command line
• File types list: File types used in Rosetta