K-Ras4B/calmodulin/PI3Kα: A promising new adenocarcinoma-specific drug target?
Ras Conformational Ensembles, Allostery, and Signaling.
Advances in template-based protein docking by utilizing interfaces towards completing structural interactome.
Principles of K-Ras effector organization and the role of oncogenic K-Ras in cancer initiation through G1 cell cycle deregulation.
The Architecture of the TIR Domain Signalosome in the Toll-like Receptor-4 Signaling Pathway.
Structural Modeling of GR Interactions with the SWI/SNF Chromatin Remodeling Complex and C/EBP.
A Structural View of Negative Regulation of the Toll-like Receptor-Mediated Inflammatory Pathway.
GTP-Dependent K-Ras Dimerization.
The Key Role of Calmodulin in KRAS-Driven Adenocarcinomas.
Taming Oncogenic Signaling at Protein Interfaces: Challenges and Opportunities.
Hot spots in protein-protein interfaces: towards drug discovery.
The structural network of Interleukin-10 and its implications in inflammation and cancer.
PRISM: a web server and repository for prediction of protein-protein interactions and modeling their 3D complexes.
Structural pathways of cytokines may illuminate their roles in regulation of cancer development and immunotherapy.
The structural pathway of interleukin 1 (IL-1) initiated signaling reveals mechanisms of oncogenic mutations and SNPs in inflammation and cancer.
Non-redundant unique interface structures as templates for modeling protein interactions.
Modeling protein assemblies in the proteome.
Network-based strategies can help mono- and poly-pharmacology drug discovery: a systems biology view.
Integrating structure to protein-protein interaction networks that drive metastasis to brain and lung in breast cancer.
Identification of interconnected markers for T-cell acute lymphoblastic leukemia.
Structural and functional analysis of perforin mutations in association with clinical data of familial hemophagocytic lymphohistiocytosis type 2 (FHL2) patients.
The structural network of inflammation and cancer: merits and challenges.
Exploiting conformational ensembles in modeling protein-protein interactions on the proteome scale.
Emerging role of the ubiquitin-proteasome system as drug targets.
A strategy based on protein-protein interface motifs may help in identifying drug off-targets.
Constructing structural networks of signaling pathways on the proteome scale.
Fast and accurate modeling of protein-protein interactions by combining template-interface-based docking with flexible refinement.
Enriching the human apoptosis pathway by predicting the structures of protein-protein complexes.
Human proteome-scale structural modeling of E2-E3 interactions exploiting interface motifs.
Expanding the conformational selection paradigm in protein-ligand docking.
Protein-protein interfaces integrated into interaction networks: implications on drug design.
HotRegion: a database of predicted hot spot clusters.
Structural cooperativity in histone H3 tail modifications.
A comparative molecular dynamics study of methylation state specificity of JMJD2A.
Predicting protein-protein interactions on a proteome scale by matching evolutionary and structural similarities at interfaces using PRISM.
Transient protein-protein interactions.
Prediction of protein-protein interactions: unifying evolution and structure at protein interfaces.
Molecular recognition of H3/H4 histone tails by the tudor domains of JMJD2A: a comparative molecular dynamics simulations study.
Allostery and population shift in drug discovery.
Conformational ensembles, signal transduction and residue hot spots: application to drug discovery.
Interaction prediction and classification of PDZ domains.
Analysis and network representation of hotspots in protein interfaces using minimum cut trees.
VitAL: Viterbi algorithm for de novo peptide design.
HotPoint: hot spot prediction server for protein interfaces.
Analysis of hot region organization in hub proteins.
Human cancer protein-protein interaction network: a structural perspective.
Towards inferring time dimensionality in protein-protein interaction networks by integrating structures: the p53 example.
Conformational energies and entropies of peptides, and the peptide-protein binding problem.
Identification of computational hot spots in protein interfaces: combining solvent accessibility and inter-residue potentials improves the accuracy.
A survey of available tools and web servers for analysis of protein-protein interactions and interfaces.
Topological properties of protein interaction networks from a structural perspective.
Architectures and functional coverage of protein-protein interfaces.
Characterization and prediction of protein interfaces to infer protein-protein interaction networks.
Principles of protein-protein interactions: what are the preferred ways for proteins to interact?
PRISM: protein-protein interaction prediction by structural matching.
HotSprint: database of computational hot spots in protein interfaces.
Computational basis of knowledge-based conformational probabilities derived from local- and long-range interactions in proteins.
Towards drugs targeting multiple proteins in a systems biology approach.
PRISM: protein interactions by structural matching.
Prediction of protein-protein interactions by combining structure and sequence conservation in protein interfaces.
Relationships between amino acid sequence and backbone torsion angle preferences.
An ontology for collaborative construction and analysis of cellular pathways.
Folding dynamics of proteins from denatured to native state: principal component analysis.
PATIKA: an integrated visual environment for collaborative construction and analysis of cellular pathways.