An iterative knowledge‐based scoring function for protein–protein recognition

By Shengyou Huang, Xiaoqin Zou. Proteins: Structure, Function, and Bioinformatics, 2008

317 citations recorded by the source corpus.

Subfields: Computational Theory and Mathematics, Materials Chemistry, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/5f140fe4eba63e289286ef2067ba071acee92136

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Citations in the corpus

Independent SE(3)-Equivariant Models for End-to-End Rigid Protein Docking (2021, unknown): “P RO (P IPER ) (Desta et al., 2020; Kozakov et al., 2017),A TTRACT (Schindler et al., 2017; de Vries et al., 2015), P ATCH D OCK (Mashiach et al., 2010; Schneidman-Duhovny et al., 2005), and HD OCK (Yan et al., 2020; 2017b;a; Huang and Zou, 2014; 2008).”
Deep convolutional networks for quality assessment of protein folds (2018, background): “These atom types are a simplification of the 20 types proposed by [31], [32], to reduce the memory footprint of the model.”
MDockPP: A hierarchical approach for protein-protein docking and its application to CAPRI rounds 15–19 (2010, methodology): “27.”
HDOCK: a web server for protein–protein and protein–DNA/RNA docking based on a hybrid strategy (2017, methodology): “With the interface information, our algorithm has ranked within the top-performed groups in recent CAPRI sessions (23,25,26), although part of our success was attributed to our iterative knowledge-based scoring function (27,28).”
The scoring of poses in protein-protein docking: current capabilities and future directions (2013, methodology): “These range from composite scoring functions using a linear combination of terms, usually models of the underlying physical phenomena at play [52-65], to methods derived from the statistics of structural databases [63,66-70], docking decoys [71-75], experimental binding energies [76], methods based ”
HSYMDOCK: a docking web server for predicting the structure of protein homo-oligomers with Cn or Dn symmetry (2018, methodology): “HSYMDOCK is supported by our hierarchical symmetric docking algorithm (29) and iterative scoring function for protein–protein interactions (30).”