1s4r
From Proteopedia
Structure of a reaction intermediate in the photocycle of PYP extracted by a SVD-driven analysis
Overview
We determine the number of authentic reaction intermediates in the later stages of the photocycle of photoactive yellow protein at room temperature, their atomic structures, and a consistent set of chemical kinetic mechanisms, by analysis of a set of time-dependent difference electron density maps spanning the time range from 5 micros to 100 ms. The successful fit of exponentials to right singular vectors derived from a singular value decomposition of the difference maps demonstrates that a chemical kinetic mechanism holds and that structurally distinct intermediates exist. We identify two time-independent difference maps, from which we refine the structures of the corresponding intermediates. We thus demonstrate how structures associated with intermediate states can be extracted from the experimental, time-dependent crystallographic data. Stoichiometric and structural constraints allow the exclusion of one kinetic mechanism proposed for the photocycle but retain other plausible candidate kinetic mechanisms.
About this Structure
1S4R is a Single protein structure of sequence from Halorhodospira halophila. Full crystallographic information is available from OCA.
Reference
Protein kinetics: structures of intermediates and reaction mechanism from time-resolved x-ray data., Schmidt M, Pahl R, Srajer V, Anderson S, Ren Z, Ihee H, Rajagopal S, Moffat K, Proc Natl Acad Sci U S A. 2004 Apr 6;101(14):4799-804. Epub 2004 Mar 23. PMID:15041745 Page seeded by OCA on Sat May 3 08:17:51 2008
