Background:
Knowledge-based potentials have been widely used in the last 20 years for fold recognition, protein structure prediction from amino acid sequence, ligand binding, protein design, and many other purposes. However generally these are not readily accessible online.
Results:
Our new knowledge-based potential server makes available many of these potentials for easy use to automatically compute the energies of protein structures or models supplied. Our web server for protein energy estimation uses four-body potentials, short-range potentials, and 23 different two-body potentials. Users can select potentials according to their needs and preferences. Files containing the coordinates of protein atoms in the PDB format can be uploaded as input. The results will be returned to the user's email address.
Conclusion:
Our Potentials 'R'Us server is an easily accessible, freely available tool with a web interface that collects all existing and future protein coarse-grained potentials and computes energies of multiple structural models.
Further information:
Related posts:
- HDAPD: a web tool for searching the disease-associated protein structures
- Optimization server reaches two million milestone
- Detection of distant evolutionary relationships between protein families using theory of sequence profile-profile comparison
- RNA FRABASE 2.0: an advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures
- OmniComm Introduces TrialOne(TM) – an Integrated Suite of Web Based Solutions for Phase I Clinic Automation and Management
Posted in