Identification of the protein kinase A regulatory RIα -catalytic subunit interface by amide H/2H exchange and protein docking

Ganesh S. Anand, Dennis Law, Jeffrey G. Mandell, Aaron N. Snead, Igor Tsigelny, Susan S. Taylor, Lynn F. Ten Eyck, Elizabeth A. Komives

Research output: Contribution to journalArticlepeer-review

77 Scopus citations

Abstract

An important goal after structural genomics is to build up the structures of higher-order protein-protein complexes from structures of the individual subunits. Often structures of higher order complexes are difficult to obtain by crystallography. We have used an alternative approach in which the structures of the individual catalytic (C) subunit and RIα regulatory (R) subunit of PKA were first subjected to computational docking, and the top 100,000 solutions were subsequently filtered based on amide hydrogen/deuterium (H/2H) exchange interface protection data. The resulting set of filtered solutions forms an ensemble of structures in which, besides the inhibitor peptide binding site, a flat interface between the C-terminal lobe of the C-subunit and the A- and B-helices of RIα is uniquely identified. This holoenzyme structure satisfies all previous experimental data on the complex and allows prediction of new contacts between the two subunits.

Original languageEnglish (US)
Pages (from-to)13264-13269
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume100
Issue number23
DOIs
StatePublished - Nov 11 2003

All Science Journal Classification (ASJC) codes

  • General

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