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Author Details

Mallur S Madhusudhan
Indian Institute of Science Education and Research Pune
1996
61
29
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37974539Identification of sequence determinants for the ABHD14 enzymes.Proteins2023
33950384Methods for Molecular Modelling of Protein Complexes.Methods Mol Biol2021
33492971Observation of an Unusually Large IR Red-Shift in an Unconventional S-H···S Hydrogen-Bond.J Phys Chem Lett2021
33838501The miRISC component AGO2 has multiple binding sites for Nup358 SUMO-interacting motif.Biochem Biophys Res Commun2021
34490344Packpred: Predicting the Functional Effect of Missense Mutations.Front Mol Biosci2021
34074788On and off controls within dynein-dynactin on native cargoes.Proc Natl Acad Sci U S A2021
32531204Combining Information from Crosslinks and Monolinks in the Modeling of Protein Structures.Structure2020
34382009Peptide bond planarity constrains hydrogen bond geometry and influences secondary structure conformations.Curr Res Struct Biol2020
32246820A knowledge-based scoring function to assess quaternary associations of proteins.Bioinformatics2020
31268326Water-Mediated Selenium Hydrogen-Bonding in Proteins: PDB Analysis and Gas-Phase Spectroscopy of Model Complexes.J Phys Chem A2019
31830030Predicting and designing therapeutics against the Nipah virus.PLoS Negl Trop Dis2019
31272063Structural insights of a cellobiose dehydrogenase enzyme from the basidiomycetes fungus Termitomyces clypeatus.Comput Biol Chem2019
28967906EZH2 promotes neoplastic transformation through VAV interaction-dependent extranuclear mechanisms.Oncogene2018
28039207Nup358 binds to AGO proteins through its SUMO-interacting motifs and promotes the association of target mRNA with miRISC.EMBO Rep2017
28364043Unraveling the structural basis for the unusually rich association of human leukocyte antigen DQ2.5 with class-II-associated invariant chain peptides.J Biol Chem2017
28212855Depth dependent amino acid substitution matrices and their use in predicting deleterious mutations.Prog Biophys Mol Biol2017
28958951In silico methods for design of biological therapeutics.Methods2017
28505542Computational modeling of protein assemblies.Curr Opin Struct Biol2017
27634929Topology independent comparison of RNA 3D structures using the CLICK algorithm.Nucleic Acids Res2017
26915388Molecular Mechanism Underlying ATP-Induced Conformational Changes in the Nucleoprotein Filament of Mycobacterium smegmatis RecA.Biochemistry2016
27596592High-resolution structure of the presynaptic RAD51 filament on single-stranded DNA by electron cryo-microscopy.Nucleic Acids Res2016
26056309Phosphoregulatory protein 14-3-3 facilitates SAC1 transport from the endoplasmic reticulum.Proc Natl Acad Sci U S A2015
24722239Biophysical properties of intrinsically disordered p130Cas substrate domain--implication in mechanosensing.PLoS Comput Biol2014
25102091Novel tetra-peptide insertion in Gag-p6 ALIX-binding motif in HIV-1 subtype C associated with protease inhibitor failure in Indian patients.AIDS2014
24782523TSpred: a web server for the rational design of temperature-sensitive mutants.Nucleic Acids Res2014
23766289Depth: a web server to compute depth, cavity sizes, detect potential small-molecule ligand-binding cavities and predict the pKa of ionizable residues in proteins.Nucleic Acids Res2013
22618536SALIGN: a web server for alignment of multiple protein sequences and structures.Bioinformatics2012
22972763Transplantation of a hydrogen bonding network from West Nile virus protease onto Dengue-2 protease improves catalytic efficiency and sheds light on substrate specificity.Protein Eng Des Sel2012
21097780ModBase, a database of annotated comparative protein structure models, and associated resources.Nucleic Acids Res2011
21602266CLICK--topology-independent comparison of biomolecular 3D structures.Nucleic Acids Res2011
21596786Biological insights from topology independent comparison of protein 3D structures.Nucleic Acids Res2011
21576233DEPTH: a web server to compute depth and predict small-molecule binding cavities in proteins.Nucleic Acids Res2011
21344277Structure-guided fragment-based in silico drug design of dengue protease inhibitors.J Comput Aided Mol Des2011
19587024Alignment of multiple protein structures based on sequence and structure features.Protein Eng Des Sel2009
17170095Gene expression profiling of the human maternal-fetal interface reveals dramatic changes between midgestation and term.Endocrinology2007
18429317Comparative protein structure modeling using MODELLER.Curr Protoc Protein Sci2007
18069886Stereochemical criteria for prediction of the effects of proline mutations on protein stability.PLoS Comput Biol2007
17478513DBAli tools: mining the protein structure space.Nucleic Acids Res2007
16381869MODBASE: a database of annotated comparative protein structure models and associated resources.Nucleic Acids Res2006
18428767Comparative protein structure modeling using Modeller.Curr Protoc Bioinformatics2006
16738133Protein complex compositions predicted by structural similarity.Nucleic Acids Res2006
16423846Variable gap penalty for protein sequence-structure alignment.Protein Eng Des Sel2006
15701722Urokinase-type plasminogen activator is a preferred substrate of the human epithelium serine protease tryptase epsilon/PRSS22.Blood2005
14681398MODBASE, a database of annotated comparative protein structure models, and associated resources.Nucleic Acids Res2004
15044736Alignment of protein sequences by their profiles.Protein Sci2004
12824315EVA: Evaluation of protein structure prediction servers.Nucleic Acids Res2003
12824331Tools for comparative protein structure modeling and analysis.Nucleic Acids Res2003
11956218RasGRP4, a new mast cell-restricted Ras guanine nucleotide-releasing protein with calcium- and diacylglycerol-binding motifs. Identification of defective variants of this signaling protein in asthma, mastocytosis, and mast cell leukemia patients and demonstration of the importance of RasGRP4 in mast cell development and function.J Biol Chem2002
12005441Reliability of assessment of protein structure prediction methods.Structure2002
11093266Computer modeling of human angiogenin-dinucleotide substrate interaction.Proteins2001
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Collaborators

Andrej Sali (CM4AI)
University of California San Francisco
Co-authored papers 22
Marc A Marti-Renom
Universitat Pompeu Fabra (UPF)
Co-authored papers 13
Ursula Pieper
University of California san francisco
Co-authored papers 10
Narayanan Eswar
University of California at San Francisco
Co-authored papers 9
Neelesh Soni
Indian Institute of Science Education and Research Pune
Co-authored papers 8
Benjamin Webb
University of California san francisco
Co-authored papers 7
Hannes Braberg
University of California San Francisco
Co-authored papers 5
Ankit Roy
Indian Institute of Science Education and Research
Co-authored papers 5
Min-Yi Shen
National Chung Hsing University
Co-authored papers 4
Fred P Davis
Howard Hughes Medical Institute
Co-authored papers 4
Steven A Krilis
University of NSW
Co-authored papers 4
William W Wong
Johns Hopkins University School of Medicine
Co-authored papers 4
Raghavan Varadarajan
Indian Institute of Science
Co-authored papers 4
Neeladri Sen
Institute of Structural and Molecular Biology, University College London
Co-authored papers 4
Sanjana Nair
Leibniz-Institut fur Virologie (LIV)
Co-authored papers 4
Andrea Rossi
Pfizer Inc.
Co-authored papers 4
Richard L Stevens
School of Biomedical Sciences and Pharmacy, University of Newcastle
Co-authored papers 4
Andras Fiser
Albert Einstein College of Medicine
Co-authored papers 4
Burkhard Rost
Technical University of Munich (TUM)
Co-authored papers 3
David Eramian
University of California at San Francisco
Co-authored papers 3
Lixin Li
Inc. 10555 Stella link
Co-authored papers 3
Yogendra Ramtirtha
Indian Institute of Science Education and Research
Co-authored papers 3
Nebojsa Mirkovic
Weill Medical College of Cornell University
Co-authored papers 3
Ashley C Stuart
Columbia University
Co-authored papers 2
Thomas E Ferrin
Department of Pharmaceutical Chemistry, University of California San Francisco
Co-authored papers 2
Florencio Pazos
National Centre for Biotechnology (CNB-CSIC)
Co-authored papers 2
Shinsuke Yasuda
Tokyo Medical and Dental University
Co-authored papers 2
Alfonso Valencia
Josep Carreras Leukaemia Research Institute (IJC)
Co-authored papers 2
Dariusz Przybylski
Howard Hughes Medical Institute, Brandeis University
Co-authored papers 2
Kanika Bajaj
Genentech Inc.
Co-authored papers 2
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