title: Mapping protein-RNA interactions by RCAP, RNA-cross-linking and peptide fingerprinting.
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.
authors.affiliation: Department of Molecular and Cellular Biochemistry, Indiana University, 212 S. Hawthorne St., 201A Simon Hall, Bloomington, IN, 47405, USA, robvaugh@indiana.edu.
authors.forename: Robert C
authors.initials: RC
authors.lastname: Vaughan
authors.forename: C Cheng
authors.initials: CC
authors.lastname: Kao
mesh_terms: D000595:Amino Acid Sequence; D002846:Chromatography, Affinity; D018360:Crystallography, X-Ray; D019906:Nuclear Magnetic Resonance, Biomolecular / Q000379:methods*; D010449:Peptide Mapping / Q000379:methods; D011487:Protein Conformation; D025941:Protein Interaction Mapping / Q000379:methods*; D012313:RNA / Q000235:genetics*; D016601:RNA-Binding Proteins / Q000737:chemistry / Q000235:genetics*
chemical_list: D016601:RNA-Binding Proteins; D012313:RNA