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How structure defines affinity in protein-protein interactions

PloS one, 2014-10, Vol.9 (10), p.e110085-e110085

2014

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Cold Spot SCANNER: Colab Notebook for predicting cold spots in protein-protein interfaces

BMC bioinformatics, 2024-04, Vol.25 (1), p.172-172, Article 172

2024

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RAS/Effector Interactions from Structural and Biophysical Perspective

Mini reviews in medicinal chemistry, 2016-03, Vol.16 (5), p.370

2016

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Generating quantitative binding landscapes through fractional binding selections combined with deep sequencing and data normalization

Nature communications, 2020-01, Vol.11 (1), p.297-297, Article 297

2020

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Tradeoff between stability and multispecificity in the design of promiscuous proteins

PLoS computational biology, 2009-12, Vol.5 (12), p.e1000627

2009

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Predicting affinity- and specificity-enhancing mutations at protein-protein interfaces

Biochemical Society transactions, 2013-10, Vol.41 (5), p.1166

2013

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A single-tube assembly of DNA using the transfer-PCR (TPCR) platform

Methods in molecular biology (Clifton, N.J.), 2014-01, Vol.1116, p.89

2014

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Ca²⁺/Calmodulin-Dependent Protein Kinase II (CaMKII) Is Activated by Calmodulin with Two Bound Calciums

Proceedings of the National Academy of Sciences - PNAS, 2006-09, Vol.103 (38), p.13968-13973

2006

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Computational design and experimental optimization of protein binders with prospects for biomedical applications

Protein engineering, design and selection, 2021-08, Vol.34

2021

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Targeting Ras with protein engineering

Oncotarget, 2023-07, Vol.14 (1), p.672-687

2023

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Exploring the Origins of Binding Specificity through the Computational Redesign of Calmodulin

Proceedings of the National Academy of Sciences - PNAS, 2003-11, Vol.100 (23), p.13274-13279

2003

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Development of High Affinity and High Specificity Inhibitors of Matrix Metalloproteinase 14 through Computational Design and Directed Evolution

The Journal of biological chemistry, 2017-02, Vol.292 (8), p.3481-3495

2017

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Saturation scanning of ubiquitin variants reveals a common hot spot for binding to USP2 and USP21

Proceedings of the National Academy of Sciences - PNAS, 2016-08, Vol.113 (31), p.8705-8710

2016

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Engineered variants of the Ras effector protein RASSF5 (NORE1A) promote anticancer activities in lung adenocarcinoma

The Journal of biological chemistry, 2021-12, Vol.297 (6), p.101353, Article 101353

2021

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Climbing Up and Down Binding Landscapes through Deep Mutational Scanning of Three Homologous Protein–Protein Complexes

Journal of the American Chemical Society, 2021-10, Vol.143 (41), p.17261-17275

2021

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Cold spots are universal in protein–protein interactions

Protein science, 2022-10, Vol.31 (10), p.e4435-n/a

2022

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Multispecific Recognition: Mechanism, Evolution, and Design

Biochemistry (Easton), 2011-02, Vol.50 (5), p.602-611

2011

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Combinatorial and Computational Approaches to Identify Interactions of Macrophage Colony-stimulating Factor (M-CSF) and Its Receptor c-FMS

The Journal of biological chemistry, 2015-10, Vol.290 (43), p.26180-26193

2015

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Triathlon for energy functions: Who is the winner for design of protein-protein interactions?

Proteins, structure, function, and bioinformatics, 2011-05, Vol.79 (5), p.1487-1498

2011

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Optimizing energy functions for protein-protein interface design

Journal of computational chemistry, 2011-01, Vol.32 (1), p.23-32

2011

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Synthetic peptides mimicking the binding site of human acetylcholinesterase for its inhibitor fasciculin 2

Journal of peptide science, 2015-09, Vol.21 (9), p.723-730

2015

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Dead-end elimination for multistate protein design

Journal of computational chemistry, 2007-10, Vol.28 (13), p.2122-2129

2007

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Heme Redox Potential Control in de Novo Designed Four-α-Helix Bundle Proteins

Biochemistry (Easton), 2000-12, Vol.39 (48), p.14813-14821

2000

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Computational design of an integrin I domain stabilized in the open high affinity conformation

Nature structural & molecular biology, 2000-08, Vol.7 (8), p.674-678

2000

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Design, expression and characterization of mutants of fasciculin optimized for interaction with its target, acetylcholinesterase

Protein engineering, design and selection, 2009-10, Vol.22 (10), p.641-648

2009

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How structure defines affinity in protein-protein interactions

Cold Spot SCANNER: Colab Notebook for predicting cold spots in protein-protein interfaces

RAS/Effector Interactions from Structural and Biophysical Perspective

Generating quantitative binding landscapes through fractional binding selections combined with deep sequencing and data normalization

Tradeoff between stability and multispecificity in the design of promiscuous proteins

Predicting affinity- and specificity-enhancing mutations at protein-protein interfaces

A single-tube assembly of DNA using the transfer-PCR (TPCR) platform

Ca²⁺/Calmodulin-Dependent Protein Kinase II (CaMKII) Is Activated by Calmodulin with Two Bound Calciums

Computational design and experimental optimization of protein binders with prospects for biomedical applications

Targeting Ras with protein engineering

Exploring the Origins of Binding Specificity through the Computational Redesign of Calmodulin

Development of High Affinity and High Specificity Inhibitors of Matrix Metalloproteinase 14 through Computational Design and Directed Evolution

Saturation scanning of ubiquitin variants reveals a common hot spot for binding to USP2 and USP21

Engineered variants of the Ras effector protein RASSF5 (NORE1A) promote anticancer activities in lung adenocarcinoma

Climbing Up and Down Binding Landscapes through Deep Mutational Scanning of Three Homologous Protein–Protein Complexes

Cold spots are universal in protein–protein interactions

Multispecific Recognition: Mechanism, Evolution, and Design

Combinatorial and Computational Approaches to Identify Interactions of Macrophage Colony-stimulating Factor (M-CSF) and Its Receptor c-FMS

Triathlon for energy functions: Who is the winner for design of protein-protein interactions?

Optimizing energy functions for protein-protein interface design

Synthetic peptides mimicking the binding site of human acetylcholinesterase for its inhibitor fasciculin 2

Dead-end elimination for multistate protein design

Heme Redox Potential Control in de Novo Designed Four-α-Helix Bundle Proteins

Computational design of an integrin I domain stabilized in the open high affinity conformation

Design, expression and characterization of mutants of fasciculin optimized for interaction with its target, acetylcholinesterase

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