(Q38270534)

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Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction

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scholarly article

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Europe PubMed Central

PMC publication ID

1 September 2017

Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction (English)

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

2

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author name string

Hongyi Zhou

1

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

publication date

1 November 2002

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

Protein Science

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

11

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

11

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

2714-2726

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations

1 reference

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Statistical potentials for fold assessment.

1 reference

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A distance-dependent atomic knowledge-based potential for improved protein structure selection.

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Recent improvements in prediction of protein structure by global optimization of a potential energy function.

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1 reference

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Ab initio construction of protein tertiary structures using a hierarchical approach

1 reference

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Effective energy functions for protein structure prediction.

1 reference

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Knowledge-based interaction potentials for proteins.

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Discrimination of the native from misfolded protein models with an energy function including implicit solvation

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Energy-based de novo protein folding by conformational space annealing and an off-lattice united-residue force field: application to the 10-55 fragment of staphylococcal protein A and to apo calbindin D9K.

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Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution

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An all-atom distance-dependent conditional probability discriminatory function for protein structure prediction 1 1Edited by F. Cohen

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Protein folding simulations with genetic algorithms and a detailed molecular description

1 reference

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Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions

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Energy functions that discriminate X-ray and near native folds from well-constructed decoys

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A preference-based free-energy parameterization of enzyme-inhibitor binding. Applications to HIV-1-protease inhibitor design

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A new approach to protein fold recognition

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Proline cis-trans isomers in calbindin D9k observed by X-ray crystallography

1 reference

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1 reference

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Identifying native-like protein structures using physics-based potentials

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https://api.crossref.org/works/10.1110%2FPS.0217002

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1 reference

https://pubmed.ncbi.nlm.nih.gov/12381853

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1 reference

https://pubmed.ncbi.nlm.nih.gov/12381853

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based on heuristic

inferred from PubMed ID database lookup

Identification of native protein folds amongst a large number of incorrect models. The calculation of low energy conformations from potentials of mean force

1 reference

https://pubmed.ncbi.nlm.nih.gov/12381853

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A critical assessment of comparative molecular modeling of tertiary structures of proteins

1 reference

https://pubmed.ncbi.nlm.nih.gov/12381853

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evaluation of atomic level mean force potentials via inverse folding and inverse refinement of protein structures: atomic burial position and pairwise non-bonded interactions

1 reference

https://pubmed.ncbi.nlm.nih.gov/12381853

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Predicting protein stability changes upon mutation using database-derived potentials: solvent accessibility determines the importance of local versus non-local interactions along the sequence

1 reference

https://pubmed.ncbi.nlm.nih.gov/12381853

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1110/PS.0217002

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

1 September 2017

ResearchGate publication ID

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