org.biojava.nbio.structure.package.html Maven / Gradle / Ivy

Go to download

Show more of this group Show more artifacts with this name
Show all versions of biojava-structure Show documentation

The protein structure modules of BioJava.

There is a newer version: 7.2.2



Interfaces and classes for protein structure (PDB). 



See also the BioJava 3 tutorial for more information on the protein structure modules.


Parse PDB files
To load a PDB file see the PDBFileReader class in the
IO subpackage.

Parse mmCif files
To laod a mmCif file see the MMCIFFileReader class.

The Structure object
The Structure object allows to access the PDB header information as well
as to the data from the ATOM records. The header information is currently available through the following objects:
  
  PDBHeader
  DBRef
  Compound
  

  The structure object provides access to the data from the ATOM records through
  a hierarchy of sub-object:
    Structure
          |
          Chain
              |
              Group
                  |
                  Atom
  

  Learn more how to work with groups.

 Other Features

  
  Calculate protein structure alignments with CE and FATCAT.
  Serialize PDB files to databases using Hibernate
  Tools for performing calculations
  
Display structures in Jmol
  



  For more documentation on how to work with the Structure API please
  see 
  http://biojava.org/wiki/BioJava:CookBook#Protein_Structure




@since 1.5