Package org.episteme.natural.biology.loaders.pdbml

package org.episteme.natural.biology.loaders.pdbml

PDBML loader for Protein Data Bank macromolecular structures.

Parses PDBML files containing 3D coordinates of proteins, nucleic acids, and their complexes.

See Also:

• RCSB PDB

Related Packages

Package	Description
org.episteme.natural.biology.loaders
org.episteme.natural.biology.loaders.biopax	BioPAX loader for biological pathways and networks.
org.episteme.natural.biology.loaders.itis	Biological taxonomy, genetics, and physiological modeling.
org.episteme.natural.biology.loaders.neuroml	NeuroML loader for computational neuroscience models.
org.episteme.natural.biology.loaders.phyloxml	PhyloXML loader for phylogenetic tree data.
org.episteme.natural.biology.loaders.sbml	Systems Biology Markup Language (SBML) loader for Episteme.

Class	Description
AtomSite	Atomic coordinate record.
PDBMLBridge	Bridge for converting PDBML DTOs to core Episteme structural biology objects.
PDBMLException	PDBML parsing exception.
PDBMLReader	PDBML Reader for Protein Data Bank macromolecular structures.
PDBMLStructure	Represents a macromolecular structure from PDBML.
PolymerEntity	Polymer entity (protein, nucleic acid).
SecondaryStructure	Secondary structure element (helix, sheet).