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Half sphere exposure


Half Sphere Exposure (HSE) is a protein solvent exposure measure that was first introduced in [1]. Like all solvent exposure measures it measures how buried amino acid residues are in a protein. It is found by counting the number of amino acid neighbors within two half spheres of chosen radius around the amino acid. The calculation of HSE is found by dividing a contact number (CN) sphere in two halves by the plane perpendicular to the Cβ-Cα vector. This simple division of the CN sphere results in two strikingly different measures, HSE-up and HSE-down. HSE-up is defined as the number of Cα atoms in the upper half (containing the pseudo-Cβ atom) and analogously HSE-down is defined as the number of Cα atoms in the opposite sphere.

If only Cα atoms are available (as is the case for many simplified representations of protein structure), a related measure, called HSEα, can be used. HSEα uses a pseudo-Cβ instead of the real Cβ atom for its calculation. The position of this pseudo-Cβ atom (pCβ) is derived from the positions of preceding Cα-1 and the following Cα+1. The Cα-pCβ vector is calculated by adding the Cα-1-Cα0 and Cα+1-Cα0 vectors.


  1. ^ Hamelryck T. (2005) An amino acid has two sides: A new 2D measure provides a different view of solvent exposure. Proteins Struct. Func. Bioinf. 59:38-48.
This article is licensed under the GNU Free Documentation License. It uses material from the Wikipedia article "Half_sphere_exposure". A list of authors is available in Wikipedia.
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