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Modeling side-chain conformation
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title
Modeling side-chain conformation
(English)
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author name string
M Vásquez
series ordinal
1
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language of work or name
English
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publication date
April 1996
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published in
Current Opinion in Structural Biology
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volume
6
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issue
2
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page(s)
217-21
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cites work
Computer modeling of protein folding: conformational and energetic analysis of reduced and detailed protein models
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https://api.crossref.org/works/10.1016/S0959-440X(96)80077-7
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7 January 2021
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An analysis of packing in the protein folding problem
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reference URL
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7 January 2021
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Core-packing constraints, hydrophobicity and protein design
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Crossref
reference URL
https://api.crossref.org/works/10.1016/S0959-440X(96)80077-7
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7 January 2021
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Conformation of amino acid side-chains in proteins
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7 January 2021
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Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes
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A statistical analysis of side-chain conformations in proteins: comparison with ECEPP predictions
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7 January 2021
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A new approach to the rapid determination of protein side chain conformations
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Database algorithm for generating protein backbone and side-chain co-ordinates from a C alpha trace application to model building and detection of co-ordinate errors.
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Fast and simple Monte Carlo algorithm for side chain optimization in proteins: application to model building by homology
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reference URL
https://api.crossref.org/works/10.1016/S0959-440X(96)80077-7
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7 January 2021
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Determinants of protein side-chain packing
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7 January 2021
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Rotamers: to be or not to be? An analysis of amino acid side-chain conformations in globular proteins.
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reference URL
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7 January 2021
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Prediction of protein side-chain conformation by packing optimization.
1 reference
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Accurate prediction of the stability and activity effects of site-directed mutagenesis on a protein core
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Predicting protein mutant energetics by self-consistent ensemble optimization
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Modeling side-chain conformation for homologous proteins using an energy-based rotamer search
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Homology modelling of annexin I: implicit solvation improves side-chain prediction and combination of evaluation criteria allows recognition of different types of conformational error
1 reference
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7 January 2021
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A method to configure protein side-chains from the main-chain trace in homology modelling
1 reference
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https://api.crossref.org/works/10.1016/S0959-440X(96)80077-7
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7 January 2021
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Backbone-dependent rotamer library for proteins. Application to side-chain prediction
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7 January 2021
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Conformational analysis of the backbone-dependent rotamer preferences of protein sidechains
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7 January 2021
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Prediction of protein side-chain conformations from local three-dimensional homology relationships
1 reference
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7 January 2021
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The crystal structure of a mutant protein with altered but improved hydrophobic core packing
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7 January 2021
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The use of side-chain packing methods in modeling bacteriophage repressor and cro proteins
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The dead-end elimination theorem and its use in protein side-chain positioning
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7 January 2021
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Efficient rotamer elimination applied to protein side-chains and related spin glasses
1 reference
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Application of a self-consistent mean field theory to predict protein side-chains conformation and estimate their conformational entropy
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reference URL
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7 January 2021
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Energy minimization method using automata network for sequence and side-chain conformation prediction from given backbone geometry.
1 reference
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reference URL
https://api.crossref.org/works/10.1016/S0959-440X(96)80077-7
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7 January 2021
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Enhanced dead-end elimination in the search for the global minimum energy conformation of a collection of protein side chains
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7 January 2021
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Finding the global minimum: a fuzzy end elimination implementation
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Equation of State Calculations by Fast Computing Machines
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7 January 2021
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Optimization by Simulated Annealing
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https://api.crossref.org/works/10.1016/S0959-440X(96)80077-7
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7 January 2021
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Side-chain prediction by neural networks and simulated annealing optimization.
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7 January 2021
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Optimal sequence selection in proteins of known structure by simulated evolution
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Ligand docking to proteins with discrete side-chain flexibility.
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Packing and recognition of protein structural elements: a new approach applied to the 4-helix bundle of myohemerythrin
1 reference
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Prediction of the positioning of the seven transmembrane alpha-helices of bacteriorhodopsin. A molecular simulation study
1 reference
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Prediction of homologous protein structures based on conformational searches and energetics.
1 reference
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7 January 2021
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9 Modeling of side chains, loops, and insertions in proteins
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Repacking protein cores with backbone freedom: structure prediction for coiled coils
1 reference
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7 January 2021
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A self consistent mean field approach to simultaneous gap closure and side-chain positioning in homology modelling
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7 January 2021
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Multiple copy sampling in protein loop modeling: computational efficiency and sensitivity to dihedral angle perturbations
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7 January 2021
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Multiple copy sampling: rigid versus flexible protein.
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Sculpting proteins interactively: continual energy minimization embedded in a graphical modeling system
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Monte Carlo-minimization approach to the multiple-minima problem in protein folding
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7 January 2021
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Local moves: an efficient algorithm for simulation of protein folding.
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7 January 2021
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An approach to protein homology modelling based on an ensemble of NMR structures: application to the Sox-5 HMG-box protein
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7 January 2021
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A general model of invariant chain association with class II major histocompatibility complex proteins
1 reference
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7 January 2021
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Identifiers
DOI
10.1016/S0959-440X(96)80077-7
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PubMed publication ID
8728654
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