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Inhibition of Ras–effector interactions by cyclic peptides

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Differential Structural Requirements for Interaction of Ras Protein with Its Distinct Downstream Effectors

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The Mechanism of ATP-Dependent Allosteric Protection of Akt Kinase Phosphorylation

Lu, S., Deng, R., Jiang, H., Song, H., Li, S., Shen, Q., Huang, W., Nussinov, R., Yu, J., & Zhang, J. (2015) · Structure · doi:10.1016/j.str.2015.06.027 · Cited by 69 · see citing works

Metal–Bis(2‐picolyl)amine Complexes as State 1(T) Inhibitors of Activated Ras Protein

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“Pathway drug cocktail”: targeting Ras signaling based on structural pathways

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The Hypervariable Region of K-Ras4B Is Responsible for Its Specific Interactions with Calmodulin

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Formation and Domain Partitioning of H-ras Peptide Nanoclusters: Effects of Peptide Concentration and Lipid Composition

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H-ras Protein in a Bilayer: Interaction and Structure Perturbation

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The Ras–Membrane Interface: Isoform-Specific Differences in the Catalytic Domain

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The Ras-Byr2RBD Complex

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Slow conformational dynamics of the guanine nucleotide‐binding protein Ras complexed with the GTP analogue GTPγS

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Mechanisms of Allostery and Membrane Attachment in Ras GTPases: Implications for Anti-Cancer Drug Discovery

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Mapping the Conformation Space of Wildtype and Mutant H-Ras with a Memetic, Cellular, and Multiscale Evolutionary Algorithm

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Ras, an Actor on Many Stages: Posttranslational Modifications, Localization, and Site-Specified Events

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Comparison of the Conformations of KRAS Isoforms, K-Ras4A and K-Ras4B, Points to Similarities and Significant Differences

Chakrabarti, M., Jang, H., & Nussinov, R. (2016) · The Journal of Physical Chemistry B · doi:10.1021/acs.jpcb.5b11110 · Cited by 52 · see citing works

The Role of Conserved Waters in Conformational Transitions of Q61H K-ras

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Computational Equilibrium Thermodynamic and Kinetic Analysis of K-Ras Dimerization through an Effector Binding Surface Suggests Limited Functional Role

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Lessons from computer simulations of Ras proteins in solution and in membrane

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The spatial structure of cell signaling systems

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Recent advances in targeting the “undruggable” proteins: from drug discovery to clinical trials

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RAS: Striking at the Core of the Oncogenic Circuitry

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Allosteric Modulator Discovery: From Serendipity to Structure-Based Design

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Allosteric Methods and Their Applications: Facilitating the Discovery of Allosteric Drugs and the Investigation of Allosteric Mechanisms

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Small Molecule Allosteric Modulators of G-Protein-Coupled Receptors: Drug–Target Interactions

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Mutation-Induced Impacts on the Switch Transformations of the GDP- and GTP-Bound K-Ras: Insights from Multiple Replica Gaussian Accelerated Molecular Dynamics and Free Energy Analysis

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Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers

Nussinov, R., Jang, H., Tsai, C., & Cheng, F. (2019) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1006658 · Cited by 129 · see citing works

Small molecules for fat combustion: targeting obesity

Liu, J., Wang, Y., & Lin, L. (2018) · Acta Pharmaceutica Sinica B · doi:10.1016/j.apsb.2018.09.007 · Cited by 123 · see citing works

Oncogenic Ras Isoforms Signaling Specificity at the Membrane

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Discovery of hidden allosteric sites as novel targets for allosteric drug design

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Allosteric drugs and mutations: chances, challenges, and necessity

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Emerging roles of allosteric modulators in the regulation of protein‐protein interactions (PPIs): A new paradigm for PPI drug discovery

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Therapeutic targeting of RAS: New hope for drugging the “undruggable”

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Oncogenic G12D mutation alters local conformations and dynamics of K-Ras

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Macromolecular room temperature crystallography

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Septin Mutations in Human Cancers

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Deactivation Pathway of Ras GTPase Underlies Conformational Substates as Targets for Drug Design

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The mechanism of activation of monomeric B-Raf V600E

Maloney, R., Zhang, M., Jang, H., & Nussinov, R. (2021) · Computational and Structural Biotechnology Journal · doi:10.1016/j.csbj.2021.06.007 · Cited by 83 · see citing works

Conformations of KRAS4B Affected by Its Partner Binding and G12C Mutation: Insights from GaMD Trajectory-Image Transformation-Based Deep Learning

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RAS in pancreatic cancer

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Calmodulin and PI3K Signaling in KRAS Cancers

Nussinov, R., Wang, G., Tsai, C., Jang, H., Lu, S., Banerjee, A., Zhang, J., & Gaponenko, V. (2017) · Trends in cancer · doi:10.1016/j.trecan.2017.01.007 · Cited by 78 · see citing works

TBK1 Provides Context-Selective Support of the Activated AKT/mTOR Pathway in Lung Cancer

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Drugging K-RasG12C through covalent inhibitors: Mission possible?

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New tricks for human farnesyltransferase inhibitor: cancer and beyond

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The RAS-Effector Interface: Isoform-Specific Differences in the Effector Binding Regions

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Knockdown of CXCR4 Inhibits CXCL12-Induced Angiogenesis in HUVECs through Downregulation of the MAPK/ERK and PI3K/AKT and the Wnt/β-Catenin Pathways

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GTP Hydrolysis Without an Active Site Base: A Unifying Mechanism for Ras and Related GTPases

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Allostery: Allosteric Cancer Drivers and Innovative Allosteric Drugs

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Along the allostery stream: Recent advances in computational methods for allosteric drug discovery

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The structural basis for Ras activation of PI3Kα lipid kinase

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Mechanistic insights into the effect of phosphorylation on Ras conformational dynamics and its interactions with cell signaling proteins

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Role of c-Src in Carcinogenesis and Drug Resistance

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The K-Ras, N-Ras, and H-Ras Isoforms: Unique Conformational Preferences and Implications for Targeting Oncogenic MutantsPreprint

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Opportunities and Challenges of Small Molecule Induced Targeted Protein Degradation

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Personal Mutanomes Meet Modern Oncology Drug Discovery and Precision Health

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Intrinsic protein disorder in oncogenic KRAS signaling

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The Plasma Membrane as a Competitive Inhibitor and Positive Allosteric Modulator of KRas4B Signaling

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A comprehensive review of computational cell cycle models in guiding cancer treatment strategies

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Study of Ras Mutations’ Prognostic Value in Metastatic Colorectal Cancer: STORIA Analysis

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Designed covalent allosteric modulators: an emerging paradigm in drug discovery

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B-Raf autoinhibition in the presence and absence of 14-3-3

Zhang, M., Jang, H., Li, Z., Sacks, D. B., & Nussinov, R. (2021) · Structure · doi:10.1016/j.str.2021.02.005 · Cited by 52 · see citing works

Conformational transformation of switch domains in GDP/K-Ras induced by G13 mutants: An investigation through Gaussian accelerated molecular dynamics simulations and principal component analysis

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Targeting the RAS upstream and downstream signaling pathway for cancer treatment

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Intrinsic K-Ras dynamics: A novel molecular dynamics data analysis method shows causality between residue pair motions

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Molecular Mechanisms in the Carcinogenesis of Oral Squamous Cell Carcinoma: A Literature Review

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Flexible-body motions of calmodulin and the farnesylated hypervariable region yield a high-affinity interaction enabling K-Ras4B membrane extraction

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Harnessing Reversed Allosteric Communication: A Novel Strategy for Allosteric Drug Discovery

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Clinical utility of PDX cohorts to reveal biomarkers of intrinsic resistance and clonal architecture changes underlying acquired resistance to cetuximab in HNSCC

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In-silico design of peptide inhibitors of K-Ras target in cancer disease

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Is Nanoclustering essential for all oncogenic KRas pathways? Can it explain why wild-type KRas can inhibit its oncogenic variant?

Nussinov, R., Tsai, C., & Jang, H. (2018) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2018.01.002 · Cited by 41 · see citing works

BRD2 induces drug resistance through activation of the RasGRP1/Ras/ERK signaling pathway in adult T‐cell lymphoblastic lymphoma

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Identification of a New Potent Inhibitor Targeting KRAS in Non-small Cell Lung Cancer Cells

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Multifaceted effect of chlorpromazine in cancer: implications for cancer treatment

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Q61 mutant-mediated dynamics changes of the GTP-KRAS complex probed by Gaussian accelerated molecular dynamics and free energy landscapes

Chen, J., Zeng, Q., Wang, W., Hu, Q., & Bao, H. (2022) · RSC Advances · doi:10.1039/d1ra07936k · Cited by 39 · see citing works

Insight into the mechanism of allosteric activation of PI3Kα by oncoprotein K-Ras4B

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Emerging roles of RAC1 in treating lung cancer patients

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Structural Dynamics in Ras and Related Proteins upon Nucleotide Switching

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Targeting RAS phosphorylation in cancer therapy: Mechanisms and modulators

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Intermediate progenitor cells provide a transition between hematopoietic progenitors and their differentiated descendants

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Markov State Models and Molecular Dynamics Simulations Reveal the Conformational Transition of the Intrinsically Disordered Hypervariable Region of K-Ras4B to the Ordered Conformation

Zhang, H., Ni, D., Fan, J., Li, M.-Y., Zhang, J., Chen, H., Nussinov, R., & Lu, S. (2022) · Journal of Chemical Information and Modeling · doi:10.1021/acs.jcim.2c00591 · Cited by 36 · see citing works

Overexpression of Epidermal Growth Factor Receptor (EGFR) and HER-2 in Bladder Carcinoma and Its Association with Patients’ Clinical Features

Li, W., Wang, Y., Tan, S., Rao, Q., Zhu, T., Huang, G. C., Li, Z. Y., & Liu, G. (2018) · Medical Science Monitor · doi:10.12659/msm.911640 · Cited by 35 · see citing works

The chemical diversity and structure-based discovery of allosteric modulators for the PIF-pocket of protein kinase PDK1

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Molecular Mechanism of Phosphorylation-Mediated Impacts on the Conformation Dynamics of GTP-Bound KRAS Probed by GaMD Trajectory-Based Deep Learning

Chen, J., Wang, J., Yang, W., Zhao, L., Zhao, J., & Hu, G. (2024) · Molecules · doi:10.3390/molecules29102317 · Cited by 34 · see citing works

Citrus reticulata peel oil inhibits non-small cell lung cancer cell proliferation in culture and implanted in nude mice

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Novel PI3K/Akt/mTOR pathway inhibitors plus radiotherapy: Strategy for non-small cell lung cancer with mutant RAS gene

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The mechanism of activation of MEK1 by B-Raf and KSR1

Maloney, R., Zhang, M., Liu, Y., Jang, H., & Nussinov, R. (2022) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-022-04296-0 · Cited by 33 · see citing works

Pioneer in Molecular Biology: Conformational Ensembles in Molecular Recognition, Allostery, and Cell Function

Nussinov, R. (2025) · Journal of Molecular Biology · doi:10.1016/j.jmb.2025.169044 · Cited by 33 · see citing works

RASSF5: An MST activator and tumor suppressor in vivo but opposite in vitro

Liao, T.-J., Tsai, C., Jang, H., Fushman, D., & Nussinov, R. (2016) · Current Opinion in Structural Biology · doi:10.1016/j.sbi.2016.09.001 · Cited by 31 · see citing works

Molecular Dynamics Simulations and Dynamic Network Analysis Reveal the Allosteric Unbinding of Monobody to H-Ras Triggered by R135K Mutation

Ni, D., Song, K., Zhang, J., & Lu, S. (2017) · International Journal of Molecular Sciences · doi:10.3390/ijms18112249 · Cited by 30 · see citing works

Mechanism of activation and the rewired network: New drug design concepts

Nussinov, R., Zhang, M., Maloney, R., Tsai, C., Yavuz, B. R., Tunçbağ, N., & Jang, H. (2021) · Medicinal Research Reviews · doi:10.1002/med.21863 · Cited by 30 · see citing works

PDEδ Binding to Ras Isoforms Provides a Route to Proper Membrane Localization

Muratcioğlu, S., Jang, H., Gürsoy, A., Keskin, Ö., & Nussinov, R. (2017) · The Journal of Physical Chemistry B · doi:10.1021/acs.jpcb.7b03035 · Cited by 30 · see citing works

Inhibition of Nonfunctional Ras

Nussinov, R., Jang, H., Gürsoy, A., Keskin, Ö., & Gaponenko, V. (2021) · Cell chemical biology · doi:10.1016/j.chembiol.2020.12.012 · Cited by 29 · see citing works

Computational Insights into the Interactions between Calmodulin and the c/nSH2 Domains of p85α Regulatory Subunit of PI3Kα: Implication for PI3Kα Activation by Calmodulin

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Dynamin-Like Proteins Are Potentially Involved in Membrane Dynamics within Chloroplasts and Cyanobacteria

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