期刊
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
卷 131, 期 18, 页码 6322-+出版社
AMER CHEMICAL SOC
DOI: 10.1021/ja809915a
关键词
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资金
- NSF [MCB-0344354, DBI-0314399]
- NIH [GM066009]
- NIH MSTP [T32 GM008719]
The question of protein dynamics and its relevance to function is currently a topic of great interest. Proteins are particularly dynamic at the side-chain level on the time scale of picoseconds to nanoseconds. Here, we present a comparison of NMR-monitored side-chain motion between three PDZ domains of similar to 30% sequence identity and show that the side-chain dynamics display nontrivial conservation. Methyl H-2 relaxation was carried out to determine side-chain order parameters (SI), which were found to be more similar than naively expected from sequence, local packing, or a combination of the two. Thus, the dynamics of a rather distant homologue appears to be an excellent predictor of a protein's side-chain dynamics and, on average, better than current structure-based methods. Fast side-chain dynamics therefore display a high level of organization associated with global fold. Beyond simple conservation, the analysis herein suggests that the pattern of side-chain flexibility has significant contributions from nonlocal elements of the PDZ fold, such as correlated motions, and that the conserved dynamics may directly support function.
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