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Tandem Domains with Tuned Interactions Are a Powerful Biological Design Principle.
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- PLoS Biology, 2015, v. 13, n. 12, p. 1, doi. 10.1371/journal.pbio.1002306
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Insights Into the Allosteric Inhibition of the SUMO E2 Enzyme Ubc9.
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- Angewandte Chemie, 2016, v. 128, n. 19, p. 5797, doi. 10.1002/ange.201511351
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- Article
Local and global anatomy of antibody‐protein antigen recognition.
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- Journal of Molecular Recognition, 2018, v. 31, n. 5, p. 1, doi. 10.1002/jmr.2693
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Visualizing RNA conformational and architectural heterogeneity in solution.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-36184-x
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- Article
Reprogramming immunosuppressive myeloid cells facilitates immunotherapy for colorectal cancer.
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- EMBO Molecular Medicine, 2021, v. 13, n. 1, p. 1, doi. 10.15252/emmm.202012798
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- Article
Insights Into the Allosteric Inhibition of the SUMO E2 Enzyme Ubc9.
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- Angewandte Chemie International Edition, 2016, v. 55, n. 19, p. 5703, doi. 10.1002/anie.201511351
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- Article
Single Mutations in Tau Modulate the Populations of Fibril Conformers through Seed Selection.
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- Angewandte Chemie International Edition, 2014, v. 53, n. 6, p. 1590, doi. 10.1002/anie.201308473
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- Article
Structural similarity of genetically interacting proteins.
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- BMC Systems Biology, 2008, v. 2, p. 1, doi. 10.1186/1752-0509-2-69
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- Article
Oligomerization and nanocluster organization render specificity.
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- Biological Reviews, 2015, v. 90, n. 2, p. 587, doi. 10.1111/brv.12124
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- Article
Multiple-Targeting and Conformational Selection in the Estrogen Receptor: Computation and Experiment.
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- Chemical Biology & Drug Design, 2011, v. 78, n. 1, p. 137, doi. 10.1111/j.1747-0285.2011.01119.x
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- Article
Bioinformatics Study of Cancer-Related Mutations within p53 Phosphorylation Site Motifs.
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- International Journal of Molecular Sciences, 2014, v. 15, n. 8, p. 13275, doi. 10.3390/ijms150813275
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- Article
Comparing interfacial dynamics in protein-proteincomplexes: an elastic network approach.
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- BMC Structural Biology, 2010, v. 10, p. 26, doi. 10.1186/1472-6807-10-26
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- Article
Cullin neddylation may allosterically tune polyubiquitin chain length and topology.
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- Biochemical Journal, 2017, v. 474, n. 5, p. 781, doi. 10.1042/BCJ20160748
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- Article
Membrane-associated Ras dimers are isoform-specific: K-Ras dimers differ from H-Ras dimers.
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- Biochemical Journal, 2016, v. 473, n. 12, p. 1719, doi. 10.1042/BCJ20160031
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- Article
Predictive modeling of moonlighting DNA-binding proteins.
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- NAR Genomics & Bioinformatics, 2022, v. 4, n. 4, p. 1, doi. 10.1093/nargab/lqac091
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- Article
DNA-binding protects p53 from interactions with cofactors involved in transcription-independent functions.
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- Nucleic Acids Research, 2016, v. 44, n. 19, p. 9096, doi. 10.1093/nar/gkw770
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- Article
PRISM: a web server and repository for prediction of protein–protein interactions and modeling their 3D complexes.
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- Nucleic Acids Research, 2014, v. 42, n. W1, p. W285, doi. 10.1093/nar/gku397
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- Article
FiberDock: a web server for flexible induced-fit backbone refinement in molecular docking.
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- Nucleic Acids Research, 2010, v. 38, n. suppl_2, p. W457, doi. 10.1093/nar/gkq373
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- Article
CCRXP: exploring clusters of conserved residues in protein structures.
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- Nucleic Acids Research, 2010, v. 38, n. suppl_2, p. W398, doi. 10.1093/nar/gkq360
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- Article
RsiteDB: a database of protein binding pockets that interact with RNA nucleotide bases.
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- Nucleic Acids Research, 2009, v. 37, n. suppl_1, p. D369, doi. 10.1093/nar/gkn759
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- Article
Protein–DNA interactions: structural, thermodynamic and clustering patterns of conserved residues in DNA-binding proteins.
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- Nucleic Acids Research, 2008, v. 36, n. 18, p. 5922, doi. 10.1093/nar/gkn573
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Cataloging and organizing p73 interactions in cell cycle arrest and apoptosis.
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- Nucleic Acids Research, 2008, v. 36, n. 15, p. 5033, doi. 10.1093/nar/gkn481
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PharmaGist: a webserver for ligand-based pharmacophore detection.
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- Nucleic Acids Research, 2008, v. 36, n. suppl_2, p. W223, doi. 10.1093/nar/gkn187
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- Article
MolAxis: a server for identification of channels in macromolecules.
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- Nucleic Acids Research, 2008, v. 36, n. suppl_2, p. W210, doi. 10.1093/nar/gkn223
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FireDock: a web server for fast interaction refinement in molecular docking†.
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- Nucleic Acids Research, 2008, v. 36, n. suppl_2, p. W229, doi. 10.1093/nar/gkn186
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MultiBind and MAPPIS: webservers for multiple alignment of protein 3D-binding sites and their interactions.
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- Nucleic Acids Research, 2008, v. 36, n. suppl_2, p. W260, doi. 10.1093/nar/gkn185
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- Article
Sequence analysis of p53 response-elements suggests multiple binding modes of the p53 tetramer to DNA targets.
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- Nucleic Acids Research, 2007, v. 35, n. 9, p. 2986, doi. 10.1093/nar/gkm192
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- Article
K128 ubiquitination constrains RAS activity by expanding its binding interface with GAP proteins.
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- EMBO Journal, 2024, v. 43, n. 14, p. 2862, doi. 10.1038/s44318-024-00146-w
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- Article
Aβ(1-42) fibril structure illuminates self-recognition and replication of amyloid in Alzheimer's disease.
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- Nature Structural & Molecular Biology, 2015, v. 22, n. 6, p. 499, doi. 10.1038/nsmb.2991
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- Article
How do transcription factors select specific binding sites in the genome?
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- Nature Structural & Molecular Biology, 2009, v. 16, n. 11, p. 1118, doi. 10.1038/nsmb1109-1118
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- Article
Single Mutations in Tau Modulate the Populations of Fibril Conformers through Seed Selection.
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- Angewandte Chemie, 2014, v. 126, n. 6, p. 1616, doi. 10.1002/ange.201308473
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- Publication type:
- Article
HMI-PRED 2.0: a biologist-oriented web application for prediction of host–microbe protein–protein interaction by interface mimicry.
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- Bioinformatics, 2022, v. 38, n. 21, p. 4962, doi. 10.1093/bioinformatics/btac633
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- Article
SARS-CoV-2 Interactome 3D: A Web interface for 3D visualization and analysis of SARS-CoV-2–human mimicry and interactions.
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- Bioinformatics, 2022, v. 38, n. 5, p. 1455, doi. 10.1093/bioinformatics/btab799
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- Article
A network-based deep learning methodology for stratification of tumor mutations.
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- Bioinformatics, 2021, v. 37, n. 1, p. 82, doi. 10.1093/bioinformatics/btaa1099
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A survey of available tools and web servers for analysis of protein-protein interactions and interfaces.
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- Briefings in Bioinformatics, 2009, v. 10, n. 3, p. 217, doi. 10.1093/bib/bbp001
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- Article
Oncogenic Mutations Differentially Affect Bax Monomer, Dimer, and Oligomeric Pore Formation in the Membrane.
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- Scientific Reports, 2016, p. 33340, doi. 10.1038/srep33340
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The Structural Basis of Oncogenic Mutations G12, G13 and Q61 in Small GTPase K-Ras4B.
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- Scientific Reports, 2016, p. 21949, doi. 10.1038/srep21949
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The Architecture of the TIR Domain Signalosome in the Toll-like Receptor-4 Signaling Pathway.
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- Scientific Reports, 2015, p. 13128, doi. 10.1038/srep13128
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Deep learning for drug repurposing: Methods, databases, and applications.
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- WIREs: Computational Molecular Science, 2022, v. 12, n. 4, p. 1, doi. 10.1002/wcms.1597
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- Article
My personal mutanome: a computational genomic medicine platform for searching network perturbing alleles linking genotype to phenotype.
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- Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02269-3
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- Article
My personal mutanome: a computational genomic medicine platform for searching network perturbing alleles linking genotype to phenotype.
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- Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02269-3
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- Article
Non-Redundant Unique Interface Structures as Templates for Modeling Protein Interactions.
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- PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0086738
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Fast and accurate modeling of protein-protein interactions by combining template-interface-based docking with flexible refinement.
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- Proteins, 2012, v. 80, n. 4, p. 1239, doi. 10.1002/prot.24022
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SymmRef: A flexible refinement method for symmetric multimers.
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- Proteins, 2011, v. 79, n. 9, p. 2607, doi. 10.1002/prot.23082
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- Article
Integrating the intrinsic conformational preferences of noncoded α-amino acids modified at the peptide bond into the noncoded amino acids database.
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- Proteins, 2011, v. 79, n. 6, p. 1841, doi. 10.1002/prot.23009
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Protein structure prediction using a docking-based hierarchical folding scheme.
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- Proteins, 2011, v. 79, n. 6, p. 1759, doi. 10.1002/prot.22999
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An integrated suite of fast docking algorithms.
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- Proteins, 2010, v. 78, n. 15, p. 3197, doi. 10.1002/prot.22790
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FiberDock: Flexible induced-fit backbone refinement in molecular docking.
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- Proteins, 2010, v. 78, n. 6, p. 1503, doi. 10.1002/prot.22668
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Principles of flexible protein-protein docking.
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- Proteins, 2008, v. 73, n. 2, p. 271, doi. 10.1002/prot.22170
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Constructing templates for protein structure prediction by simulation of protein folding pathways.
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- Proteins, 2008, v. 73, n. 2, p. 380, doi. 10.1002/prot.22073
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- Article