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Allosteric Pathways in the PPARγ-RXRα nuclear receptor complex
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/jcc.20289openalex-snapshot
Scalable molecular dynamics with NAMD
inferredcites →https://doi.org/10.1002/prot.20784openalex-snapshot
Generalized correlation for biomolecular dynamics
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A simple clustering algorithm can be accurate enough for use in calculations of p K s in macromolecules
inferredcites →https://doi.org/10.1002/prot.22613openalex-snapshot
Molecular mechanism of allosteric communication in the human PPARα‐RXRα heterodimer
inferredcites →https://doi.org/10.1002/prot.340170406openalex-snapshot
A comparison of 15N NMR relaxation measurements with a molecular dynamics simulation: Backbone dynamics of the glucocorticoid receptor DNA‐binding domain
inferredcites →https://doi.org/10.1002/qua.22638openalex-snapshot
CHARMM force field parameterization of rosiglitazone
inferredcites →https://doi.org/10.1007/s00249-007-0220-9openalex-snapshot
Ligand-escape pathways from the ligand-binding domain of PPARγ receptor as probed by molecular dynamics simulations
inferredcites →https://doi.org/10.1007/s00249-010-0608-9openalex-snapshot
Dynamic correlation networks in human peroxisome proliferator-activated receptor-γ nuclear receptor protein
inferredcites →https://doi.org/10.1007/s008940100045openalex-snapshot
GROMACS 3.0: a package for molecular simulation and trajectory analysis
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The RXR heterodimers and orphan receptors
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VMD: Visual molecular dynamics
inferredcites →https://doi.org/10.1016/j.jmb.2008.10.039openalex-snapshot
Structural Insight into PPARγ Activation Through Covalent Modification with Endogenous Fatty Acids
inferredcites →https://doi.org/10.1016/j.jmb.2009.01.025openalex-snapshot
INT131: A Selective Modulator of PPARγ
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Molecular Mechanism of Peroxisome Proliferator-Activated Receptor α Activation by WY14643: a New Mode of Ligand Recognition and Receptor Stabilization
inferredcites →https://doi.org/10.1016/j.str.2007.07.014openalex-snapshot
Partial Agonists Activate PPARγ Using a Helix 12 Independent Mechanism
inferredcites →https://doi.org/10.1016/j.tibs.2014.10.011openalex-snapshot
Nuclear receptor full-length architectures: confronting myth and illusion with high resolution
inferredcites →https://doi.org/10.1016/s1097-2765(00)80448-7openalex-snapshot
Asymmetry in the PPARγ/RXRα Crystal Structure Reveals the Molecular Basis of Heterodimerization among Nuclear Receptors
inferredcites →https://doi.org/10.1016/s1097-2765(00)80467-0openalex-snapshot
Molecular Recognition of Fatty Acids by Peroxisome Proliferator–Activated Receptors
inferredcites →https://doi.org/10.1021/acs.jpcb.5b02228openalex-snapshot
Allosteric Communication Pathways and Thermal Rectification in PDZ-2 Protein: A Computational Study
inferredcites →https://doi.org/10.1021/bi00163a007openalex-snapshot
Backbone dynamics of the glucocorticoid receptor DNA-binding domain
inferredcites →https://doi.org/10.1021/ct300377aopenalex-snapshot
Exploring Residue Component Contributions to Dynamical Network Models of Allostery
inferredcites →https://doi.org/10.1021/ct400977ropenalex-snapshot
Determination of Signaling Pathways in Proteins through Network Theory: Importance of the Topology
inferredcites →https://doi.org/10.1021/jm990554gopenalex-snapshot
The PPARs: From Orphan Receptors to Drug Discovery
inferredcites →https://doi.org/10.1021/jp312576vopenalex-snapshot
Solution NMR and Computational Methods for Understanding Protein Allostery
inferredcites →https://doi.org/10.1021/jp973084fopenalex-snapshot
All-Atom Empirical Potential for Molecular Modeling and Dynamics Studies of Proteins
inferredcites →https://doi.org/10.1021/jz200830gopenalex-snapshot
Mapping the Intramolecular Vibrational Energy Flow in Proteins Reveals Functionally Important Residues
inferredcites →https://doi.org/10.1038/25931openalex-snapshot
Ligand binding and co-activator assembly of the peroxisome proliferator-activated receptor-γ
inferredcites →https://doi.org/10.1038/31860openalex-snapshot
Allosteric effects of DNA on transcriptional regulators
inferredcites →https://doi.org/10.1038/358771a0openalex-snapshot
Convergence of 9-cis retinoic acid and peroxisome proliferator signalling pathways through heterodimer formation of their receptors
inferredcites →https://doi.org/10.1038/371528a0openalex-snapshot
Regulation of retinoid signalling by receptor polarity and allosteric control of ligand binding
inferredcites →https://doi.org/10.1038/47254openalex-snapshot
Dominant negative mutations in human PPARγ associated with severe insulin resistance, diabetes mellitus and hypertension
inferredcites →https://doi.org/10.1038/emboj.2011.445openalex-snapshot
Structure of the full human RXR/VDR nuclear receptor heterodimer complex with its DR3 target DNA
inferredcites →https://doi.org/10.1038/nature07413openalex-snapshot
Structure of the intact PPAR-γ–RXR-α nuclear receptor complex on DNA
inferredcites →https://doi.org/10.1038/nature11966openalex-snapshot
Multidomain integration in the structure of the HNF-4α nuclear receptor complex
inferredcites →https://doi.org/10.1038/ncomms8284openalex-snapshot
Free energy landscape of activation in a signalling protein at atomic resolution
inferredcites →https://doi.org/10.1038/nm.3159openalex-snapshot
PPARγ signaling and metabolism: the good, the bad and the future
inferredcites →https://doi.org/10.1038/nrd1551openalex-snapshot
Principles for modulation of the nuclear receptor superfamily
inferredcites →https://doi.org/10.1038/nrd2760openalex-snapshot
Allosteric modulators of GPCRs: a novel approach for the treatment of CNS disorders
inferredcites →https://doi.org/10.1038/nsb892openalex-snapshot
A dynamic mechanism of nuclear receptor activation and its perturbation in a human disease
inferredcites →https://doi.org/10.1038/nsmb.2046openalex-snapshot
DNA binding alters coactivator interaction surfaces of the intact VDR–RXR complex
inferredcites →https://doi.org/10.1038/nsmb.2054openalex-snapshot
Common architecture of nuclear receptor heterodimers on DNA direct repeat elements with different spacings
inferredcites →https://doi.org/10.1038/nsmb.2778openalex-snapshot
Structure of the retinoid X receptor α–liver X receptor β (RXRα–LXRβ) heterodimer on DNA
inferredcites →https://doi.org/10.1063/1.445869openalex-snapshot
Comparison of simple potential functions for simulating liquid water
inferredcites →https://doi.org/10.1073/pnas.0709915104openalex-snapshot
Localizing frustration in native proteins and protein assemblies
inferredcites →https://doi.org/10.1073/pnas.0810961106openalex-snapshot
Dynamical networks in tRNA:protein complexes
inferredcites →https://doi.org/10.1073/pnas.1018980108openalex-snapshot
On the role of frustration in the energy landscapes of allosteric proteins
inferredcites →https://doi.org/10.1073/pnas.1120536109openalex-snapshot
Allosteric pathways in imidazole glycerol phosphate synthase
inferredcites →https://doi.org/10.1073/pnas.96.11.6102openalex-snapshot
A peroxisome proliferator-activated receptor γ ligand inhibits adipocyte differentiation
inferredcites →https://doi.org/10.1074/jbc.m401552200openalex-snapshot
A New Class of Peroxisome Proliferator-activated Receptor Agonists with a Novel Binding Epitope Shows Antidiabetic Effects
inferredcites →https://doi.org/10.1074/jbc.m702316200openalex-snapshot
Insights into the Mechanism of Partial Agonism
inferredcites →https://doi.org/10.1074/jbc.m800104200openalex-snapshot
T2384, a Novel Antidiabetic Agent with Unique Peroxisome Proliferator-activated Receptor γ Binding Properties
inferredcites →https://doi.org/10.1093/nar/gkp608openalex-snapshot
Conformational analysis of nucleic acids revisited: Curves+
inferredcites →https://doi.org/10.1093/nar/gks447openalex-snapshot
Protein frustratometer: a tool to localize energetic frustration in protein molecules
inferredcites →https://doi.org/10.1103/physreve.69.026113openalex-snapshot
Finding and evaluating community structure in networks
inferredcites →https://doi.org/10.1103/physreve.69.066138openalex-snapshot
Estimating mutual information
inferredcites →https://doi.org/10.1124/mol.111.076216openalex-snapshot
Mode of Peroxisome Proliferator-Activated Receptor γ Activation by Luteolin
inferredcites →https://doi.org/10.1124/pr.114.008862openalex-snapshot
International Union of Basic and Clinical Pharmacology. XC. Multisite Pharmacology: Recommendations for the Nomenclature of Receptor Allosterism and Allosteric Ligands
inferredcites →https://doi.org/10.1126/science.1164265openalex-snapshot
DNA Binding Site Sequence Directs Glucocorticoid Receptor Structure and Activity
inferredcites →https://doi.org/10.1126/science.1258096openalex-snapshot
The new frontier of genome engineering with CRISPR-Cas9
inferredcites →https://doi.org/10.1126/science.1749933openalex-snapshot
The Energy Landscapes and Motions of Proteins
inferredcites →https://doi.org/10.1128/mcb.18.6.3483openalex-snapshot
Transactivation by Retinoid X Receptor–Peroxisome Proliferator-Activated Receptor γ (PPARγ) Heterodimers: Intermolecular Synergy Requires Only the PPARγ Hormone-Dependent Activation Function
inferredcites →https://doi.org/10.1146/annurev-biophys-050511-102222openalex-snapshot
Allostery and the Monod-Wyman-Changeux Model After 50 Years
inferredcites →https://doi.org/10.1146/annurev-physiol-021909-135917openalex-snapshot
Structural Overview of the Nuclear Receptor Superfamily: Insights into Physiology and Therapeutics
inferredcites →https://doi.org/10.1146/annurev.biophys.30.1.329openalex-snapshot
Binding of Ligands and Activation of Transcription by Nuclear Receptors
inferredcites →https://doi.org/10.1155/2012/701412openalex-snapshot
Solution Structures of PPARγ2/RXRαComplexes
inferredcites →https://doi.org/10.1186/1471-2105-8-306openalex-snapshot
Convergent algorithms for protein structural alignment
inferredcites →https://doi.org/10.1210/edrv.20.3.0366openalex-snapshot
Nuclear Receptor Coregulators: Cellular and Molecular Biology
inferredcites →https://doi.org/10.1210/edrv.20.5.0380openalex-snapshot
Peroxisome Proliferator-Activated Receptors: Nuclear Control of Metabolism
inferredcites →https://doi.org/10.1210/me.16.3.469openalex-snapshot
Allosteric Regulation of Estrogen Receptor Structure, Function, and Coactivator Recruitment by Different Estrogen Response Elements
inferredcites →https://doi.org/10.1210/me.2005-0171openalex-snapshot
A Novel Partial Agonist of Peroxisome Proliferator-Activated Receptor-γ (PPARγ) Recruits PPARγ-Coactivator-1α, Prevents Triglyceride Accumulation, and Potentiates Insulin Signaling in Vitro
inferredcites →https://doi.org/10.1371/journal.pone.0036297openalex-snapshot
Medium Chain Fatty Acids Are Selective Peroxisome Proliferator Activated Receptor (PPAR) γ Activators and Pan-PPAR Partial Agonists
inferredcites →https://doi.org/10.2210/pdb4nqa/pdbopenalex-snapshot
Crystal structure of liganded hRXR-alpha/hLXR-beta heterodimer on DNA
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.2139/ssrn.4782907openalex-extracted
Comparative Molecular Simulation of Pparg Protein Interactions with Omega-3 and Omega-6 Lipid Mediators
inferred← citeshttps://doi.org/10.1002/cmdc.202400492openalex-snapshot
Discovery of Palindrome Dual PPARγ‐GPR40 Agonists for Treating Type 2 Diabetes
inferred← citeshttps://doi.org/10.1002/jcc.25192openalex-snapshot
CAMERRA: An analysis tool for the computation of conformational dynamics by evaluating residue–residue associations
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inferred← citeshttps://doi.org/10.1007/978-1-0716-1154-8_9openalex-snapshot
Community Network Analysis of Allosteric Proteins
inferred← citeshttps://doi.org/10.1007/s00214-023-03049-xopenalex-snapshot
N-methyl acetamide asymmetric vibrational activation
inferred← citeshttps://doi.org/10.1007/s11892-021-01385-5openalex-snapshot
PPARγ and Diabetes: Beyond the Genome and Towards Personalized Medicine
inferred← citeshttps://doi.org/10.1016/j.bbalip.2021.159032openalex-snapshot
Biological action of docosahexaenoic acid in a 3D tissue-engineered psoriatic skin model: Focus on the PPAR signaling pathway
inferred← citeshttps://doi.org/10.1016/j.jsb.2019.03.004openalex-snapshot
Understanding the mechanistic basis of non-coding RNA through molecular dynamics simulations
inferred← citeshttps://doi.org/10.1016/j.jsbmb.2020.105585openalex-snapshot
Cholestenoic acid analogues as inverse agonists of the liver X receptors
inferred← citeshttps://doi.org/10.1016/j.molmet.2018.12.005openalex-snapshot
Natural helix 9 mutants of PPARγ differently affect its transcriptional activity
inferred← citeshttps://doi.org/10.1016/j.trac.2025.118174openalex-snapshot
CRISPR-Cas technology for rapid detection of pathogens
inferred← citeshttps://doi.org/10.1017/s0033583518000070openalex-snapshot
Key role of the REC lobe during CRISPR–Cas9 activation by ‘sensing’, ‘regulating’, and ‘locking’ the catalytic HNH domain
inferred← citeshttps://doi.org/10.1021/acs.biochem.6b00859openalex-snapshot
Allosteric Communication Disrupted by a Small Molecule Binding to the Imidazole Glycerol Phosphate Synthase Protein–Protein Interface
inferred← citeshttps://doi.org/10.1021/acs.est.6c03897openalex-snapshot
Beyond Total PFAS: Isomer Composition Matters for Water Quality and Human Exposure Studies
inferred← citeshttps://doi.org/10.1021/acs.jcim.1c00323openalex-snapshot
Unraveling the Allosteric Cross-Talk between the Coactivator Peptide and the Ligand-Binding Site in the Glucocorticoid Receptor
inferred← citeshttps://doi.org/10.1021/acs.jcim.3c01384openalex-snapshot
Binding of Per- and Polyfluoroalkyl Substances (PFAS) to the PPARγ/RXRα–DNA Complex
inferred← citeshttps://doi.org/10.1021/acs.jcim.7b00638openalex-snapshot
Functional Role and Hierarchy of the Intermolecular Interactions in Binding of Protein Kinase Clients to the Hsp90–Cdc37 Chaperone: Structure-Based Network Modeling of Allosteric Regulation
inferred← citeshttps://doi.org/10.1021/acs.jctc.8b00333openalex-snapshot
Combinatorial Coarse-Graining of Molecular Dynamics Simulations for Detecting Relationships between Local Configurations and Overall Conformations
inferred← citeshttps://doi.org/10.1021/acs.jctc.9b00119openalex-snapshot
Atomistic Modeling of the ABL Kinase Regulation by Allosteric Modulators Using Structural Perturbation Analysis and Community-Based Network Reconstruction of Allosteric Communications
inferred← citeshttps://doi.org/10.1021/acs.jpcb.2c06546openalex-snapshot
Allosteric Signaling in PDZ Energetic Networks: Embedding Error Analysis
inferred← citeshttps://doi.org/10.1021/acs.jpcb.3c04592openalex-snapshot
Connected Component Analysis of Dynamical Perturbation Contact Networks
inferred← citeshttps://doi.org/10.1021/acs.jpcb.5c03537openalex-snapshot
Impact of Force Field Polarization on Correlated Motions of Proteins
inferred← citeshttps://doi.org/10.1021/acs.jpcb.6b02057openalex-snapshot
The Promiscuity of Allosteric Regulation of Nuclear Receptors by Retinoid X Receptor
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Exploring Allosteric Pathways of a V-Type Enzyme with Dynamical Perturbation Networks
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Striking Plasticity of CRISPR-Cas9 and Key Role of Non-target DNA, as Revealed by Molecular Simulations
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Decrypting the Information Exchange Pathways across the Spliceosome Machinery
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Protospacer Adjacent Motif-Induced Allostery Activates CRISPR-Cas9
inferred← citeshttps://doi.org/10.1038/s41467-023-37956-1openalex-snapshot
Turning up the heat mimics allosteric signaling in imidazole-glycerol phosphate synthase
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Structural basis for the asymmetric binding of coactivator SRC1 to FXR-RXRα and allosteric communication within the complex
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A compound-based proteomic approach discloses 15-ketoatractyligenin methyl ester as a new PPARγ partial agonist with anti-proliferative ability
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Eigenvector centrality for characterization of protein allosteric pathways
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Structural insights into ligand-binding pocket formation in Nurr1 by molecular dynamics simulations
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Asymmetric binding of coactivator SRC1 to FXR-RXR and allosteric communication within the complex
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Impact of force field polarization on the collective motions of proteins
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The PPARΩPocket: Renewed Opportunities for Drug Development
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Redesigning N-glycosylation sites in a GH3 β-xylosidase improves the enzymatic efficiency
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Visualizing the Architectures and Interactions of Nuclear Receptors
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Unraveling the Allosteric Cross-Talk Between Coactivator Peptide and Ligand Binding Site in Glucocorticoid Receptor
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Ligand-Induced Allosteric Effects Governing SR Signaling
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