application_documentation/membrane_proteins/RosettaMP Movers MPDocking

Getting Started

Build Documentation

Rosetta Tutorials

Rosetta Basics

Rosetta Applications

• Structure Prediction

• Design

• Docking

• Analysis

• Utilities

• Antibody-specific applications

• RNA-specific applications

• Tools

• Full apps list

Rosetta Scripting Interfaces

Development Documentation

Internal Documentation

How to Write Documentation

FAQ

Glossary

RosettaEncyclopedia

Options list

Metadata

Questions and comments to:

• Julia Koehler Leman (julia.koehler1982@gmail.com)
• Rebecca Alford (rfalford12@gmail.com)
• Corresponding PI: Jeffrey J. Gray (jgray@jhu.edu)

Last Updated: 2/8/18

Description

This Mover docks two membrane proteins. It adds membrane components to the pose, then docks proteins along the flexible jump. It assumes that protein 1 is fixed in the membrane.

Code and Demo

The Mover lives in main/source/src/protocols/docking/membrane/.

RosettaScripts interface

The following options are available within the RosettaScript interface:

cen_sfxn_weights - string - Set weight for the low resolution scorefunction. fa_sfxn_weights - string - Set weight for the high resolution scorefunction. center - RealVector - Membrane center x, y, z. normal - RealVector - membrane normal x, y, z. jump_num - Size - Description.

Flags / Options

Flag	Description
-mp::dock::weights_cen <String>	Scorefunction for low-resolution step.
-mp::dock::weights_fa <String>	Scorefunction for high-resolution step.

Reference

RosettaMP is described in

• Alford RF, Koehler Leman J, Weitzner BD, Duran AM, Elazar A, Tilley DC, Gray JJ (2015) An integrated framework advancing membrane protein modeling and design, PLoS Computational Biology (in press)