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The dataset for protein–RNA binding affinity
Author(s) -
Yang Xiufeng,
Li Haotian,
Huang Yangyu,
Liu Shiyong
Publication year - 2013
Publication title -
protein science
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.353
H-Index - 175
eISSN - 1469-896X
pISSN - 0961-8368
DOI - 10.1002/pro.2383
Subject(s) - rna binding protein , rna , binding site , docking (animal) , chemistry , protein data bank , computational biology , binding energy , biochemistry , biology , protein structure , physics , gene , medicine , nursing , nuclear physics
Abstract We have developed a non‐redundant protein–RNA binding benchmark dataset derived from the available protein–RNA structures in the Protein Database Bank. It consists of 73 complexes with measured binding affinity. The experimental conditions (pH and temperature) for binding affinity measurements are also listed in our dataset. This binding affinity dataset can be used to compare and develop protein–RNA scoring functions. The predicted binding free energy of the 73 complexes from three available scoring functions for protein–RNA docking has a low correlation with the binding Gibbs free energy calculated from K d . © 2013 The Protein Society