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Dina Schneidman-Duhovny

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Chemicals & Drugs

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Protein Interaction Mapping

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Dina Schneidman-Duhovny; Solmaz Sobhanifar; Pavel Strop; Javier Velázquez-Muriel; David A Agard; Agustin Avila-Sakar; Yifan Cheng; Volker Dötsch; Ho Min Kim; Seung Joong Kim; Kristin A Krukenberg; Hong Liang; Maofu Liao; Jaume Pons; Arvind Rajpal; Andrea Rossi; Andrej Sali
A method for integrative structure determination of protein-protein complexes.
Javier Velázquez-Muriel; Benjamin M Webb; Dina Schneidman-Duhovny; Keren Lasker; Jeremy Phillips; Daniel Russel; Andrej Sali
Assembly of macromolecular complexes by satisfaction of spatial restraints from electron microscopy images.
Zheng Yang; Thomas D Goddard; Conrad C Huang; Keren Lasker; Elaine C Meng; Eric F Pettersen; Andrej Sali; Dina Schneidman-Duhovny; Ben Webb; Thomas E Ferrin
UCSF Chimera, MODELLER, and IMP: an integrated modeling system.

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All Publications

2012: Dina Schneidman-Duhovny; Solmaz Sobhanifar; Pavel Strop; Javier Velázquez-Muriel; David A Agard; Agustin Avila-Sakar; Yifan Cheng; Volker Dötsch; Ho Min Kim; Seung Joong Kim; Kristin A Krukenberg; Hong Liang; Maofu Liao; Jaume Pons; Arvind Rajpal; Andrea Rossi; Andrej Sali
A method for integrative structure determination of protein-protein complexes.
Bioinformatics (Oxford, England) 2012;28(24):3282-9.
2012: Javier Velázquez-Muriel; Benjamin M Webb; Dina Schneidman-Duhovny; Keren Lasker; Jeremy Phillips; Daniel Russel; Andrej Sali
Assembly of macromolecular complexes by satisfaction of spatial restraints from electron microscopy images.
Proceedings of the National Academy of Sciences of the United States of America 2012;109(46):18821-6.
2012: Zheng Yang; Thomas D Goddard; Conrad C Huang; Keren Lasker; Elaine C Meng; Eric F Pettersen; Andrej Sali; Dina Schneidman-Duhovny; Ben Webb; Thomas E Ferrin
UCSF Chimera, MODELLER, and IMP: an integrated modeling system.
Journal of structural biology 2012;179(3):269-78.
2012: Dina Schneidman-Duhovny; Seung Joong Kim; Andrej Sali
Integrative structural modeling with small angle X-ray scattering profiles.
BMC structural biology 2012;12():17.
2012: Daniel Russel; Keren Lasker; Bret Peterson; Dina Schneidman-Duhovny; Elina Tjioe; Javier Velázquez-Muriel; Ben Webb; Andrej Sali
Putting the pieces together: integrative modeling platform software for structure determination of macromolecular assemblies.
PLoS biology 2012;10(1):e1001244.
2011: Dina Schneidman-Duhovny; Michal Hammel; Andrej Sali
Macromolecular docking restrained by a small angle X-ray scattering profile.
Journal of structural biology 2011;173(3):461-71.
2011: Benjamin Webb; Dina Schneidman-Duhovny; Elina Tjioe; Javier Velázquez-Muriel; Seung Joong Kim; Keren Lasker; Jeremy Phillips; Daniel Russel; Andrej Sali
Modeling of proteins and their assemblies with the integrative modeling platform.
Methods in molecular biology (Clifton, N.J.) 2011;781():377-97.
2011: Ursula Pieper; Benjamin M Webb; David T Barkan; Dina Schneidman-Duhovny; Avner Schlessinger; Hannes Braberg; Zheng Yang; Elaine C Meng; Eric F Pettersen; Conrad C Huang; Ruchira S Datta; Parthasrathy Sampathkumar; Mallur S Madhusudhan; Kimmen Sjölander; Thomas E Ferrin; Stephen K Burley; Andrej Sali
ModBase, a database of annotated comparative protein structure models, and associated resources.
Nucleic acids research 2011;39(Database issue):D465-74.
2010: Efrat Mashiach; Dina Schneidman-Duhovny; Aviyah Peri; Yoli Shavit; Ruth Nussinov; Haim Wolfson
An integrated suite of fast docking algorithms.
Proteins 2010;78(15):3197-204.
2010: Keren Lasker; Jeremy L Phillips; Daniel Russel; Javier Velázquez-Muriel; Dina Schneidman-Duhovny; Elina Tjioe; Ben Webb; Avner Schlessinger; Andrej Sali
Integrative structure modeling of macromolecular assemblies from proteomics data.
Molecular & cellular proteomics : MCP 2010;9(8):1689-702.
2010: Dina Schneidman-Duhovny; Michal Hammel; Andrej Sali
FoXS: a web server for rapid computation and fitting of SAXS profiles.
Nucleic acids research 2010;38(Web Server issue):W540-4.
2009: Oranit Dror; Dina Schneidman-Duhovny; Yuval Inbar; Ruth Nussinov; Haim Wolfson
Novel approach for efficient pharmacophore-based virtual screening: method and applications.
Journal of chemical information and modeling 2009;49(10):2333-43.
2009: Daniel Russel; Keren Lasker; Jeremy Phillips; Dina Schneidman-Duhovny; Javier A Velázquez-Muriel; Andrej Sali
The structural dynamics of macromolecular processes.
Current opinion in cell biology 2009;21(1):97-108.
2008: Dina Schneidman-Duhovny; Oranit Dror; Yuval Inbar; Ruth Nussinov; Haim Wolfson
Deterministic pharmacophore detection via multiple flexible alignment of drug-like molecules.
Journal of computational biology : a journal of computational molecular cell biology 2008;15(7):737-54.
2008: Dina Schneidman-Duhovny; Oranit Dror; Yuval Inbar; Ruth Nussinov; Haim Wolfson
PharmaGist: a webserver for ligand-based pharmacophore detection.
Nucleic acids research 2008;36(Web Server issue):W223-8.
2008: Efrat Mashiach; Dina Schneidman-Duhovny; Nelly Andrusier; Ruth Nussinov; Haim Wolfson
FireDock: a web server for fast interaction refinement in molecular docking.
Nucleic acids research 2008;36(Web Server issue):W229-32.
2008: Mattijs K Julsing; Nikolay Vasilev; Dina Schneidman-Duhovny; Remco Muntendam; Herman J Woerdenbag; Wim J Quax; Haim Wolfson; Iliana Ionkova; Oliver Kayser
Metabolic stereoselectivity of cytochrome P450 3A4 towards deoxypodophyllotoxin: In silico predictions and experimental validation.
European journal of medicinal chemistry 2008;43(6):1171-9.
2008: Ugur Emekli; Dina Schneidman-Duhovny; Haim Wolfson; Ruth Nussinov; Turkan Haliloglu
HingeProt: automated prediction of hinges in protein structures.
Proteins 2008;70(4):1219-27.
2008: Oranit Dror; Dina Schneidman-Duhovny; Alexandra Shulman-Peleg; Ruth Nussinov; Haim Wolfson; Roded Sharan
Structural similarity of genetically interacting proteins.
BMC systems biology 2008;2():69.
2007: Dina Schneidman-Duhovny; Ruth Nussinov; Haim Wolfson
Automatic prediction of protein interactions with large scale motion.
Proteins 2007;69(4):764-73.
2007: Laboratoire Biochimie et Genie Enzymatique des Lipases; Ying Yan; Wai-Ching Hon; Olga Perisic; Marketa Zvelebil; Yuval Inbar; Dina Schneidman-Duhovny; Haim Wolfson; Jonathan M Backer; Roger L Williams
Mechanism of two classes of cancer mutations in the phosphoinositide 3-kinase catalytic subunit.
Science (New York, N.Y.) 2007;317(5835):239-42.
2005: Dina Schneidman-Duhovny; Yuval Inbar; Ruth Nussinov; Haim Wolfson
Geometry-based flexible and symmetric protein docking.
Proteins 2005;60(2):224-31.
2005: Yuval Inbar; Dina Schneidman-Duhovny; Inbal Halperin; Amir Oron; Ruth Nussinov; Haim Wolfson
Approaching the CAPRI challenge with an efficient geometry-based docking.
Proteins 2005;60(2):217-23.
2005: Dina Schneidman-Duhovny; Yuval Inbar; Ruth Nussinov; Haim Wolfson
PatchDock and SymmDock: servers for rigid and symmetric docking.
Nucleic acids research 2005;33(Web Server issue):W363-7.
2005: Haim Wolfson; Maxim Shatsky; Dina Schneidman-Duhovny; Oranit Dror; Alexandra Shulman-Peleg; Buyong Ma; Ruth Nussinov
From structure to function: methods and applications.
Current protein & peptide science 2005;6(2):171-83.
2004: Maxim Shatsky; Oranit Dror; Dina Schneidman-Duhovny; Ruth Nussinov; Haim Wolfson
BioInfo3D: a suite of tools for structural bioinformatics.
Nucleic acids research 2004;32(Web Server issue):W503-7.
2004: Tali Gidalevitz; Chhanda Biswas; Hua Ding; Dina Schneidman-Duhovny; Haim Wolfson; Fred Stevens; Sheena Radford; Yair Argon
Identification of the N-terminal peptide binding site of glucose-regulated protein 94.
The Journal of biological chemistry 2004;279(16):16543-52.
2004: Dina Schneidman-Duhovny; Ruth Nussinov; Haim Wolfson
Predicting molecular interactions in silico: II. Protein-protein and protein-drug docking.
Current medicinal chemistry 2004;11(1):91-107.
2003: Dina Schneidman-Duhovny; Yuval Inbar; Vladimir Polak; Maxim Shatsky; Inbal Halperin; Hadar Benyamini; Adi Barzilai; Oranit Dror; Nurit Haspel; Ruth Nussinov; Haim Wolfson
Taking geometry to its edge: fast unbound rigid (and hinge-bent) docking.
Proteins 2003;52(1):107-12.