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java.lang.Objectorg.biojava.bio.structure.domain.LocalProteinDomainParser
public class LocalProteinDomainParser
Protein Domain Parser is a an algorithm that attempts at assigning domains for 3D protein structures. Since domains in proteins are difficult to define, results detected by automated algorithms have to be taken with a grain of salt. see
J Mol Biol. 2004 Jun 4;339(3):647-78. Toward consistent assignment of structural domains in proteins. Veretnik S, Bourne PE, Alexandrov NN, Shindyalov IN.This implementation is based on a Java port of the PDP algorithm, as described in:
Method Summary | |
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static List<Domain> |
suggestDomains(Atom[] ca)
Suggest domains for a set of Calpha atoms |
static List<Domain> |
suggestDomains(Structure s)
Suggest domains for a protein structure |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Method Detail |
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public static List<Domain> suggestDomains(Structure s) throws StructureException
s
- the protein structure
StructureException
public static List<Domain> suggestDomains(Atom[] ca) throws StructureException
ca
- an array of Calpha atoms
StructureException
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