| Interface | Description |
|---|---|
| StructureIO |
Defines the interface how to access Structure (- PDB file) input,output readers, writers.
|
| StructureIOFile |
interface StructureIOFile extends the StructureIO interface
and adds a few File specific methods.
|
| Class | Description |
|---|---|
| CAConverter |
Converts full atom representations to Calpha only ones.
|
| DASStructureClient |
A DAS client that connects to a DAS structure service and
returns a Biojava structure class.
|
| FileConvert |
Methods to convert a structure object into different file formats.
|
| MMCIFFileReader |
How to parse an mmCif file:
|
| PDBFileParser |
This class implements the actual PDB file parsing.
|
| PDBFileReader |
The wrapper class for parsing a PDB file.
|
| PDBMSDReader |
retreive a structure from an installation of the MSD - search
database ( http://www.ebi.ac.uk/msd/index.html ,
http://www.ebi.ac.uk/msd-srv/docs/dbdoc/ )
|
| PDBSRSReader |
reads a PDB file from a local SRS installation using getz Actually
is the same as PDBFileReader, but instead of reading from a file stream, reads from a
buffered stream.
|
| SeqRes2AtomAligner |
Aligns the SEQRES residues to the ATOM residues.
|
| Exception | Description |
|---|---|
| PDBParseException |
An exception during the parsing of a PDB file.
|