The homologous superfamilies cluster proteins with highly similar structures and functions. The topology level clusters structures according to their toplogical connections and numbers of secondary structures. Architecture, which describes the gross orientation of secondary structures, independent of connectivities, is currently assigned manually. Class, derived from secondary structure content, is assigned for more than 90% of protein structures automatically. The program does not run well on SGI platforms.ĬATH is a novel hierarchical classification of protein domain structures, which clusters proteins at four major levels, class(C), architecture(A), topology(T) and homologous superfamily (H). ANALYZE has been tested on IBM, IBM SP2, SUN workstations and Pentium machines running RedHat Linux. It includes capabability to compare NMR intensites and coupling constants to experimental data.

This is a collection of analysis tools for protein such as 3-D structure comparison, binding site identification, noncovalent bond finder, dimensions of pore of an ion channel etc.ġ23D is a web-based program which combines substitution matrix, secondary structure prediction, and contact capacity potentials to thread a sequence throught the set of structures.ĪNALYZE is free program which can analyze conformations obtained from global searches. Structural Biology Software Database Application Index Sort by Ĭategory: Protein Structure Analysis and Verification (45 entries)

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