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PEARLS: Program for Energetic Analysis of Receptor−Ligand System

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Ab initio models for receptor-ligand interactions in proteins. 4. Model assembly study of the catalytic mechanism of triosephosphate isomerase
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Flexible docking using tabu search and an empirical estimate of binding affinity
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CHARMM : A program for macromolecular energy, minimization, and dynamics calculations
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Atomic solvation parameters applied to molecular dynamics of proteins in solution
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Computational detection of the binding‐site hot spot at the remodeled human growth hormone–receptor interface
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Development and validation of a genetic algorithm for flexible docking 1 1Edited by F. E. Cohen
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Forces and energetics of hapten-antibody dissociation: a biased molecular dynamics simulation study 1 1Edited by B. Honig
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Ligands and biological activities of soluble Fcγ receptors
inferredcites →https://doi.org/10.1016/0165-2478(94)00219-hopenalex-snapshot
Function of B-cell antigen receptor of different classes
inferredcites →https://doi.org/10.1016/0165-6147(96)10025-0openalex-snapshot
The energetics of ligand binding at catecholamine receptors
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Microscopic Kinetics and Energetics Distinguish GABAA Receptor Agonists from Antagonists
inferredcites →https://doi.org/10.1016/s0006-3495(03)75034-6openalex-snapshot
Molecular Dynamics Simulations of the NGF-TrkA Domain 5 Complex and Comparison with Biological Data
inferredcites →https://doi.org/10.1016/s0076-6879(00)23368-5openalex-snapshot
Measurement of protein interaction bioenergetics: Application to structural variants of anti-sCD4 antibody
inferredcites →https://doi.org/10.1016/s0097-8485(02)00050-5openalex-snapshot
CLiBE: a database of computed ligand binding energy for ligand–receptor complexes
inferredcites →https://doi.org/10.1016/s1093-3263(01)00104-8openalex-snapshot
Molecular similarity-based estimation of properties: a comparison of three structure spaces
inferredcites →https://doi.org/10.1016/s1093-3263(01)00125-5openalex-snapshot
Consensus scoring for ligand/protein interactions
inferredcites →https://doi.org/10.1021/ar010014popenalex-snapshot
Ligand Binding Affinities from MD Simulations
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Conformational Energetics of Rhodopsin Modulated by Nonlamellar-Forming Lipids
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Temperature Dependence of the Backbone Dynamics of Ribonuclease A in the Ground State and Bound to the Inhibitor 5‘-Phosphothymidine (3‘-5‘)Pyrophosphate Adenosine 3‘-Phosphate
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Effect of Four-α-Helix Bundle Cavity Size on Volatile Anesthetic Binding Energetics
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RNA Molecules That Specifically and Stoichiometrically Bind Aminoglycoside Antibiotics with High Affinities
inferredcites →https://doi.org/10.1021/ci049733jopenalex-snapshot
An Extensive Test of 14 Scoring Functions Using the PDBbind Refined Set of 800 Protein−Ligand Complexes
inferredcites →https://doi.org/10.1021/ed065p112openalex-snapshot
Principles of electronegativity Part I. General nature
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Interactions of Metal Ions with Water: Ab Initio Molecular Orbital Studies of Structure, Vibrational Frequencies, Charge Distributions, Bonding Enthalpies, and Deprotonation Enthalpies. 2. Monohydroxides
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A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules
inferredcites →https://doi.org/10.1021/ja0029782openalex-snapshot
The Magnesium−Ene Cyclization Stereochemically Directed by an Allylic Oxyanionic Group and Its Application to a Highly Stereoselective Synthesis of (±)-Matatabiether. Allylmagnesium Compounds by Reductive Magnesiation of Allyl Phenyl Sulfides 1
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Use of MM-PBSA in Reproducing the Binding Free Energies to HIV-1 RT of TIBO Derivatives and Predicting the Binding Mode to HIV-1 RT of Efavirenz by Docking and MM-PBSA
inferredcites →https://doi.org/10.1021/jm048957qopenalex-snapshot
The PDBbind Database: Methodologies and Updates
inferredcites →https://doi.org/10.1021/jm970535bopenalex-snapshot
Comparative Binding Energy Analysis of HIV-1 Protease Inhibitors: Incorporation of Solvent Effects and Validation as a Powerful Tool in Receptor-Based Drug Design
inferredcites →https://doi.org/10.1021/jm980536jopenalex-snapshot
A General and Fast Scoring Function for Protein−Ligand Interactions: A Simplified Potential Approach
inferredcites →https://doi.org/10.1023/a:1008121029716openalex-snapshot
Identification of ligands for RNA targets via structure-based virtual screening: HIV-1 TAR
inferredcites →https://doi.org/10.1023/a:1016357811882openalex-snapshot
Further development and validation of empirical scoring functions for structure-based binding affinity prediction
inferredcites →https://doi.org/10.1038/319199a0openalex-snapshot
Solvation energy in protein folding and binding
inferredcites →https://doi.org/10.1038/319203a0openalex-snapshot
Inadequacy of Coulomb's friction law for particle assemblies
inferredcites →https://doi.org/10.1038/35075035openalex-snapshot
Evolution of Asian monsoons and phased uplift of the Himalaya–Tibetan plateau since Late Miocene times
inferredcites →https://doi.org/10.1038/35081138openalex-snapshot
The ins and outs of signalling
inferredcites →https://doi.org/10.1038/358009b0openalex-snapshot
Indian court bans quotas that give share of science posts to outcasts
inferredcites →https://doi.org/10.1038/358076a0openalex-snapshot
Antibody and HIV-1 gpl20 recognition of CD4 undermines the concept of mimicry between antibodies and receptors
inferredcites →https://doi.org/10.1038/364003b0openalex-snapshot
Monoglot filing urged for European patents
inferredcites →https://doi.org/10.1038/364550a0openalex-snapshot
An RNA motif that binds ATP
inferredcites →https://doi.org/10.1046/j.1432-1327.2000.01371.xopenalex-snapshot
Energetics of myo‐inositol hexasulfate binding to human acidic fibroblast growth factor
inferredcites →https://doi.org/10.1073/pnas.202485799openalex-snapshot
A simple physical model for binding energy hot spots in protein–protein complexes
inferredcites →https://doi.org/10.1093/bioinformatics/15.3.243openalex-snapshot
Docking of hydrophobic ligands with interaction-based matching algorithms.
inferredcites →https://doi.org/10.1093/emboj/19.11.2399openalex-snapshot
Receptor recognition by gp130 cytokines
inferredcites →https://doi.org/10.1126/science.279.5347.102openalex-snapshot
Ultraviolet-Induced Cell Death Blocked by a Selenoprotein from a Human Dermatotropic Poxvirus
inferredcites →https://doi.org/10.1126/science.279.5347.98openalex-snapshot
Modification of the NADH of the Isoniazid Target (InhA) from Mycobacterium tuberculosis
inferredcites →https://doi.org/10.1146/annurev.bb.23.060194.002025openalex-snapshot
Protein Structure-Based Drug Design
inferredcites →https://doi.org/10.1146/annurev.biophys.31.101101.140922openalex-snapshot
Conformational Regulation of Integrin Structure and Function
inferredcites →https://doi.org/10.1146/annurev.pa.36.040196.002553openalex-snapshot
Structural Mechanisms of HIV Drug Resistance
inferredcites →https://doi.org/10.1515/bc.2000.112openalex-snapshot
Metabolic Networks: a Signal-Oriented Approach to Cellular Models
inferredcites →https://doi.org/10.2174/1386207013330661openalex-snapshot
The Linear Interaction Energy Method for Predicting Ligand Binding Free Energies

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Incoming claims: where this work appears in other papers’ reference lists and arguments.

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