Prediction of Protein Loop Conformations using the AGBNP Implicit Solvent Model and Torsion Angle Sampling
about
Modeling large regions in proteins: applications to loops, termini, and foldingToward high-resolution homology modeling of antibody Fv regions and application to antibody-antigen dockingDesign and application of implicit solvent models in biomolecular simulationsSub-angstrom accuracy in protein loop reconstruction by robotics-inspired conformational samplingImprovements to robotics-inspired conformational sampling in rosettaLoopIng: a template-based tool for predicting the structure of protein loopsTemplate-based protein modeling: recent methodological advances.The VSGB 2.0 model: a next generation energy model for high resolution protein structure modeling.Improving predicted protein loop structure ranking using a Pareto-optimality consensus method.Internal proton transfer in the external pyridoxal 5'-phosphate Schiff base in dopa decarboxylase.The AGBNP2 Implicit Solvation Model.Three-residue loop closure in proteins: a new kinematic method reveals a locus of connected loop conformations.The Binding Energy Distribution Analysis Method (BEDAM) for the Estimation of Protein-Ligand Binding Affinities.A molecular mechanics approach to modeling protein-ligand interactions: relative binding affinities in congeneric series.Sampling multiple scoring functions can improve protein loop structure prediction accuracy.Structure prediction of loops with fixed and flexible stemsImproving the description of salt bridge strength and geometry in a Generalized Born model.Efficient gaussian density formulation of volume and surface areas of macromolecules on graphical processing units.The importance of slow motions for protein functional loops.Conformational sampling in template-free protein loop structure modeling: an overview.Introducing Charge Hydration Asymmetry into the Generalized Born Model.Progress in super long loop prediction.The linear interaction energy method for the prediction of protein stability changes upon mutationComputational predictions of the mutant behavior of AraC.Parameterization of the Hamiltonian Dielectric Solvent (HADES) Reaction-Field Method for the Solvation Free Energies of Amino Acid Side-Chain Analogs.Investigation of the Polymeric Properties of α-Synuclein and Comparison with NMR Experiments: A Replica Exchange Molecular Dynamics Study.Development of a new physics-based internal coordinate mechanics force field and its application to protein loop modeling.Implicit Solvent Model for Million-Atom Atomistic Simulations: Insights into the Organization of 30-nm Chromatin Fiber.Connecting free energy surfaces in implicit and explicit solvent: an efficient method to compute conformational and solvation free energiesModeling the possible conformations of the extracellular loops in G-protein-coupled receptors.Modeling loop backbone flexibility in receptor-ligand docking simulations.Comparison between self-guided Langevin dynamics and molecular dynamics simulations for structure refinement of protein loop conformations.Efficiency of tabu-search-based conformational search algorithms.Modeling Loops in Protein Structures
P2860
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P2860
Prediction of Protein Loop Conformations using the AGBNP Implicit Solvent Model and Torsion Angle Sampling
description
2008 nî lūn-bûn
@nan
2008年の論文
@ja
2008年論文
@yue
2008年論文
@zh-hant
2008年論文
@zh-hk
2008年論文
@zh-mo
2008年論文
@zh-tw
2008年论文
@wuu
2008年论文
@zh
2008年论文
@zh-cn
name
Prediction of Protein Loop Con ...... del and Torsion Angle Sampling
@en
type
label
Prediction of Protein Loop Con ...... del and Torsion Angle Sampling
@en
prefLabel
Prediction of Protein Loop Con ...... del and Torsion Angle Sampling
@en
P2093
P2860
P356
P1476
Prediction of Protein Loop Con ...... del and Torsion Angle Sampling
@en
P2093
Anthony K Felts
Dmitriy Chekmarev
Kristina A Paris
Richard A Friesner
Ronald M Levy
P2860
P304
P356
10.1021/CT800051K
P577
2008-01-01T00:00:00Z