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   Last Modified

   15 February 2017

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Molecular Modeling

Homology Modeling Reference for HyperChem

Motonori Tsuji

 

English, 62 pages

Usage of the user interfaces in Homology Modeling for HyperChem, as well as their individual functions, are explained in the first half of this book.

In the second half of this book, a homology modeling for human Rhodopsin is practiced using Homology Modeling for HyperChem running on HyperChem program.

Moreover, an analysis procedure for the structural changes between apo and holo structures of Retinol-binding protein is explained using low-temperature molecular dynamics annealing approaches supported by Homology Modeling for HyperChem.

These samples explained here are attached to Homology Modeling for HyperChem as the test samples.

 

Contents

Recommended Minimum System Requirements

Software Requirements

Installation

   Installation of TclPro1.2

   Installation of Homology Modeling for HyperChem

User Interfaces

   All Programs

   Estimation of Hydrogen Atoms in Water

   Geometry Correction

   Homology Modeling

   Interface Selection

   Protein Superposition

   Ramachandran Plot

   Restraints

   Side Chain Rotamer Modeling

Tutorial 1 for Homology Modeling

Tutorial 2 for Homology Modeling

Appendix

   Manual Side-Chain Rotamer Modeling

 

 

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