Rama

Type	Python Script
Download	rama.py
Author(s)	Jeremy Tame
License
	This code has been put under version control in the project Pymol-script-repo

Introduction

rama.py provides an interactive Ramachandran plot for a PyMOL selection or object.

The plot displays residue backbone phi/psi angles and allows residues to be selected interactively by clicking points in the plot. Residue types can be highlighted using different colours, making it useful for examining unusual backbone conformations and crowded regions of Ramachandran space.

Installation

Download rama.py and load it in PyMOL with:

run rama.py

Usage

First create or load a PyMOL object or selection, for example:

fetch 2dn2
select alpha1, chain A and resi 1-141

Then run the Ramachandran plot command:

rama alpha1

The plot title uses the name of the selected object or selection.

Clicking a point in the Ramachandran plot selects the corresponding residue in PyMOL.

Features

Interactive Ramachandran plot linked to PyMOL selections.
Clickable residues.
Glycine and proline are displayed with distinctive colours.
Additional residue types can be highlighted to aid interpretation.
Works with pre-existing PyMOL objects and selections.

Download

The latest version is available from GitHub: https://github.com/JezTame/pymol-rama