OPUS-CSF: A C-atom-based scoring function for ranking protein structural models-Reference-Cited by-同舟云学术

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OPUS-CSF: A C-atom-based scoring function for ranking protein structural models

Published:2017-11-06 Issue:1 Volume:27 Page:286-292
ISSN:0961-8368
Container-title:Protein Science
language:en
Short-container-title:Protein Science

Author:

Xu Gang¹,Ma Tianqi²³,Zang Tianwu²³,Wang Qinghua⁴,Ma Jianpeng¹²³⁴

Affiliation:

1. School of Life Sciences; Tsinghua University; Beijing China

2. Applied Physics Program, Rice University; Houston Texas

3. Department of Bioengineering; Rice University; Houston Texas

4. Verna and Marrs McLean Department of Biochemistry and Molecular Biology; Baylor College of Medicine, One Baylor Plaza, BCM-125; Houston Texas

Publisher

Wiley

Subject

Molecular Biology,Biochemistry

Reference64 articles.

1. All-atom empirical potential for molecular modeling and dynamics studies of proteins;MacKerell;J Phys Chem B,1998

2. CHARMM: a program for macromolecular energy, minimization, and dynamics calculations;Brooks;J Comput Chem,1983

3. An all atom force field for simulations of proteins and nucleic acids;Weiner;J Comput Chem,1986

4. The Amber biomolecular simulation programs;Case;J Comput Chem,2005

5. A new force field (ECEPP-05) for peptides, proteins, and organic molecules;Arnautova;J Phys Chem B,2006

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1. OPUS-Mut: Studying the Effect of Protein Mutation through Side-Chain Modeling;Journal of Chemical Theory and Computation;2023-02-22

2. Secondary structure specific simpler prediction models for protein backbone angles;BMC Bioinformatics;2022-01-04

3. OPUS-Rota4: a gradient-based protein side-chain modeling framework assisted by deep learning-based predictors;Briefings in Bioinformatics;2021-12-15

4. OPUS-X: an open-source toolkit for protein torsion angles, secondary structure, solvent accessibility, contact map predictions and 3D folding;Bioinformatics;2021-09-03

5. OPUS-Rota4: A Gradient-Based Protein Side-Chain Modeling Framework Assisted by Deep Learning-Based Predictors;2021-07-23

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