Structural footprinting in protein structure comparison: the impact of structural fragments.

ABSTRACT:

Background

One approach for speeding-up protein structure comparison is the projection approach, where a protein structure is mapped to a high-dimensional vector and structural similarity is approximated by distance between the corresponding vectors. Structural footprinting methods are projection methods that employ the same general technique to produce the mapping: first select a representative set of structural fragments as models and then map a protein structure to a vector in which each dimension corresponds to a particular model and "counts" the number of times the model appears in the structure. The main difference between any two structural footprinting methods is in the set of models they use; in fact a large number of methods can be generated by varying the type of structu

SUBMITTER: Zotenko E 

PROVIDER: S-EPMC2082327 | biostudies-literature | 2007 Aug

REPOSITORIES: biostudies-literature