Occluded Surface (OS) calculates the atomic packing of a protein. From this information the intermolecular packing between protomers of an oligomeric protein may be calculated using the utility program, INTCHOS.
Below is a portion of the output from INTCHOS for the dimeric form of the pyrococcus woesei TATA-binding protein. The listing is for residues in the A monomer and the values of OS represent the occluded surface between that residue and all atoms of the B monomer. The values for os*[1-raylen] represent the respective residue OS normalized for the closness of packing. Here, a larger value indicates greater packing interaction.
Resnum Resname OS os*[1-raylen]
114 GLU 4.98 2.43
115 PHE 0.68 0.07
116 ASN 19.85 13.59
117 LEU 0.86 0.06
118 ASP 22.17 12.75
119 VAL 31.85 20.10
This listing gives a good indication of which residues may be important for the interaction between monomers.
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Revised: Tuesday, 20-Oct-1998 14:51:56 EDT