HCPM--program for hierarchical clustering of protein models
Open Access
- 19 April 2005
- journal article
- research article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 21 (14) , 3179-3180
- https://doi.org/10.1093/bioinformatics/bti450
Abstract
Summary: HCPM is a tool for clustering protein structures from comparative modeling, ab initio structure prediction, etc. A hierarchical clustering algorithm is designed and tested, and a heuristic is provided for an optimal cluster selection. The method has been successfully tested during the CASP6 experiment. Availability: HCPM program can be downloaded from http://www.biocomp.chem.uw.edu.pl/HCPM/ Contact:dgront@chem.uw.edu.plKeywords
This publication has 5 references indexed in Scilit:
- Finding the needle in a haystack: educing native folds from ambiguousab initio protein structure predictionsJournal of Computational Chemistry, 2001
- Data clusteringACM Computing Surveys, 1999
- Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteinsProteins-Structure Function and Bioinformatics, 1999
- Clustering of low-energy conformations near the native structures of small proteinsProceedings of the National Academy of Sciences, 1998
- Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and bayesian scoring functionsJournal of Molecular Biology, 1997