Retrospective analysis of a secondary structure prediction: The catalytic domain of matrix metalloproteinases

✍ Scribed by Edward E. Hodgkin; Ian C. Gillman; Richard J. Gilbert

• Book ID: 105356229
• Publisher: Cold Spring Harbor Laboratory Press
• Year: 2008
• Tongue: English
• Weight: 249 KB
• Volume: 3
• Category: Article
• ISSN: 0961-8368
• DOI: 10.1002/pro.5560030615

✦ Synopsis

Abstract

Secondary structure prediction of the catalytic domain of matrix metalloproteinases is evaluated in the light of recently published experimentally determined structures. The prediction was made by combining conformational propensity, surface probability, and residue conservation calculated for an alignment of 19 sequences. The position of each observed secondary structure element was correctly predicted with a high degree of accuracy, with a single β‐strand falsely predicted. The domain fold was also anticipated from the prediction by analogy with the structural elements found in the distantly related metalloproteinases thermolysin, astacin, and adamalysin.