Hydration, mobility and accessibility of lysozyme: structures of a pH 6.5 orthorhombic form and its low-humidity variant and a comparative study involving 20 crystallographically independent molecules

Biswal, BK and Sukumar, N and Vijayan, M (2000) Hydration, mobility and accessibility of lysozyme: structures of a pH 6.5 orthorhombic form and its low-humidity variant and a comparative study involving 20 crystallographically independent molecules. In: Acta Crystallographica Section D, 56 . pp. 1110-1119.

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Abstract

The structure analyses of orthorhombic lysozyme grown at pH 6.5 and its low-humidity variant are reported. The structures of the same form grown at pH 9.5 and 4.5 and that of the lowhumidity variant of the pH 9.5 form are available. comparison between them shows that the changes molecular geometry and hydration caused by changes in the amount of solvent surrounding protein molecules are more pronounced than those caused by variation in pH. particular, the conformation and the mutual orientation the catalytic residues Glu35 and Asp52 remain unaffected change in pH. A comparative study involving 20 crystallographically independent lysozyme molecules, including five in the orthorhombic form, leads to the delineation of the relatively rigid, moderately flexible and highly flexible regions of the molecule. Half the binding cleft (subsites D, E and belong to the rigid region but the other half (subsites A, B and C) belong to a flexible region. There is no marked correlation between relative rigidity and conservation of side-chain conformation except at the binding site. The study permits the identiÆcation of seven invariant water molecules associates with the protein. Most of them are involved important tertiary interactions, while one occurs in the active-site cleft. The study demonstrates a weak correlation between non-accessibility and rigidity. On average, the level hydration of polar atoms increases rapidly with accessible atomic surface area, but levels off at about 15 A 2 at a little over one ordered water molecule per polar protein atom. Only 15 N and O atoms are hydrated in all 20 molecules. 13 of these are hydrated by the seven invariant water molecules. Of the seven, only one water molecule is totally buried within the protein.

Item Type:	Journal Article
Publication:	Acta Crystallographica Section D
Publisher:	International Union of Crystallography
Additional Information:	The copyright belongs to International Union of Crystallography
Keywords:	lysozyme;crystallography;protein;hydration;orthorhombic
Department/Centre:	Division of Biological Sciences > Molecular Biophysics Unit
Date Deposited:	31 Aug 2004
Last Modified:	19 Sep 2010 04:14
URI:	http://eprints.iisc.ac.in/id/eprint/1372

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