Crystallographic and NMR evaluation of the impact of peptide binding to the second PDZ domain of PTP1E.
Biochemistry. 2010 Sep 14;
Authors: Zhang J, Sapienza PJ, Ke H, Chang A, Hengel SR, Wang H, Phillips GN, Lee AL
PDZ (PSD95/Discs large/ZO-1) domains are ubiquitous protein interaction motifs found in scaffolding proteins involved in signal transduction. Despite the fact that many PDZs show a limited tendency to undergo structural change, the PDZ family has been associated with long-range communication and allostery. One of the PDZ domains studied most in terms of structure and biophysical properties is the second PDZ ("PDZ2") domain from protein tyrosine phophatase 1E (PTP1E, also known as PTPL1). Previously we showed through NMR relaxation studies that binding of the RA-GEF2 C-terminal peptide substrate results in long-range propagation of side-chain dynamic changes in human PDZ2 [Fuentes, et al., J. Mol. Biol. (2004), 335, 1105-1115]. Here, we present the first X-ray crystal structures of PDZ2 in the absence and presence of RA-GEF2 ligand, solved to resolutions of 1.65 and 1.3 Ã?, respectively. These structures deviate somewhat from previously determined NMR structures, and indicate that very minor structural changes in PDZ2 accompany peptide binding. NMR residual dipolar couplings confirm the crystal structures to be accurate models of the time-averaged atomic coordinates of PDZ2. The impact on side-chain dynamics was further tested by NMR characterization of side-chain dynamics with a C-terminal peptide from APC, which showed near-identical results to that of RA-GEF2. Thus, allosteric transmission in PDZ2 induced by peptide binding is conveyed purely and robustly by dynamics. 15N relaxation dispersion measurements did not detect appreciable populations of a kinetic structural intermediate. Collectively, for ligand binding to PDZ2, these data support a lock-and-key binding model from a structural perspective and an allosteric model from a dynamical perspective, which together suggest a complex energy landscape for functional transitions within the ensemble.
PMID: 20839809 [PubMed - as supplied by publisher]
[Question from NMRWiki Q&A forum] Protein-peptide binding NMR Experments
Protein-peptide binding NMR Experments
Hello friends ,
Protein exist as multimeter (i.e Monomer,dimer,tetrameter ) Before binding to the peptide . After peptide binding to the protein ,we are assuming that protein exist as dimer .
So could you please suggest any supporting NMR experiments and reference to prove protein's Dimer state ?
Evaluation of protein adsorption and preferred binding regions in multimodal chromato
Evaluation of protein adsorption and preferred binding regions in multimodal chromatography using NMR
Chung, W. K., Freed, A. S., Holstein, M. A., McCallum, S. A., Cramer, S. M....
Date: 2010-09-28
NMR titration experiments with labeled human ubiquitin were employed in concert with chromatographic data obtained with a library of ubiquitin mutants to study the nature of protein adsorption in multimodal (MM) chromatography. The elution order of the mutants on the MM resin was significantly different from that obtained by ion-exchange chromatography. Further, the chromatographic results...
nmrlearner
Journal club
0
09-28-2010 10:03 PM
Evaluation of protein adsorption and preferred binding regions in multimodal chromato
Evaluation of protein adsorption and preferred binding regions in multimodal chromatography using NMR.
Related Articles Evaluation of protein adsorption and preferred binding regions in multimodal chromatography using NMR.
Proc Natl Acad Sci U S A. 2010 Sep 13;
Authors: Chung WK, Freed AS, Holstein MA, McCallum SA, Cramer SM
NMR titration experiments with labeled human ubiquitin were employed in concert with chromatographic data obtained with a library of ubiquitin mutants to study the nature of protein adsorption in multimodal (MM) chromatography....
nmrlearner
Journal club
0
09-15-2010 02:26 PM
[NMR paper] Evaluation of Solvent Accessibility to the [Fe(4)S(4)] Binding Pocket in Native and T
Evaluation of Solvent Accessibility to the Binding Pocket in Native and Tyr19 Mutant High Potential Iron Proteins by (1)H-(15)N HMQC and (19)F NMR Experiments.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-acspubs.jpg Related Articles Evaluation of Solvent Accessibility to the Binding Pocket in Native and Tyr19 Mutant High Potential Iron Proteins by (1)H-(15)N HMQC and (19)F NMR Experiments.
Inorg Chem. 1996 Feb 28;35(5):1121-1125
Authors: Li D, Agarwal A, Cowan JA
The solvent accessibility of Chromatium...
Crystallographic and NMR evaluation of the impact of peptide binding to the second PD
Linear Mode
