Software:nest General Description
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Introduction:
nest is a program for modeling protein structure based on a given sequence-template alignment. It has the following capabilities:
- model building with artificial evolution
- sequence alignment tuning
- composite structure building
- model building based on multiple templates
- structure refinement
nest can be used to build homology models based on:
- a single sequence-template alignment
- from multiple templates for the entire structure
- from different templates used for different regions of the structure
It also carries out energy based structure refinement and can change an alignment based on energetic considerations.
nest is supported by a funding from the National Science Foundation Grant # DBI-9904841
Developed in the Honig Lab
