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Updated: Apr 14, 2026

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions
Published on: September 28, 2017
Mapping protein-RNA interactions by RCAP, RNA-cross-linking and peptide fingerprinting
Robert C Vaughan1, C Cheng Kao
1Department of Molecular and Cellular Biochemistry, Indiana University, 212 S. Hawthorne St., 201A Simon Hall, Bloomington, IN, 47405, USA, robvaugh@indiana.edu.
Abstract:
RNA nanotechnology often feature protein RNA complexes. The interaction between proteins and large RNAs are difficult to study using traditional structure-based methods like NMR or X-ray crystallography. RCAP, an approach that uses reversible-cross-linking affinity purification method coupled with mass spectrometry, has been developed to map regions within proteins that contact RNA. This chapter details how RCAP is applied to map protein-RNA contacts within virions.
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