1tal
From Proteopedia
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'''ALPHA-LYTIC PROTEASE AT 120 K (SINGLE STRUCTURE MODEL)''' | '''ALPHA-LYTIC PROTEASE AT 120 K (SINGLE STRUCTURE MODEL)''' | ||
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[[Category: Agard, D A.]] | [[Category: Agard, D A.]] | ||
[[Category: Rader, S D.]] | [[Category: Rader, S D.]] | ||
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| - | [[Category: | + | [[Category: Low temperature]] |
| - | [[Category: | + | [[Category: Serine protease]] |
| - | [[Category: | + | [[Category: Serine proteinase]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 09:44:32 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 06:44, 3 May 2008
ALPHA-LYTIC PROTEASE AT 120 K (SINGLE STRUCTURE MODEL)
Overview
Insight into the dynamic properties of alpha-lytic protease (alpha LP) has been obtained through the use of low-temperature X-ray crystallography and multiple-conformation refinement. Previous studies of alpha LP have shown that the residues around the active site are able to move significantly to accommodate substrates of different sizes. Here we show a link between the ability to accommodate ligands and the dynamics of the binding pocket. Although the structure of alpha LP at 120 K has B-factors with a uniformly low value of 4.8 A2 for the main chain, four regions stand out as having significantly higher B-factors. Because thermal motion should be suppressed at cryogenic temperatures, the high B-factors are interpreted as the result of trapped conformational substates. The active site residues that are perturbed during accommodation of different substrates are precisely those showing conformational substates, implying that substrate binding selects a subset of conformations from the ensemble of accessible states. To better characterize the precise nature of these substates, a protein model consisting of 16 structures has been refined and evaluated. The model reveals a number of features that could not be well-described by conventional B-factors: for example, 40% of the main-chain residue conformations are distributed asymmetrically or in discrete clusters. Furthermore, these data demonstrate an unexpected correlation between motions on either side of the binding pocket that we suggest is a consequence of "dynamic close packing." These results provide strong evidence for the role of protein dynamics in substrate binding and are consistent with the results of dynamic studies of ligand binding in myoglobin and ribonuclease A.
About this Structure
1TAL is a Single protein structure of sequence from Lysobacter enzymogenes. Full crystallographic information is available from OCA.
Reference
Conformational substates in enzyme mechanism: the 120 K structure of alpha-lytic protease at 1.5 A resolution., Rader SD, Agard DA, Protein Sci. 1997 Jul;6(7):1375-86. PMID:9232638 Page seeded by OCA on Sat May 3 09:44:32 2008
