Class DSSP

source code

                                object --+        
                                         |        
   AbstractPropertyMap.AbstractPropertyMap --+    
                                             |    
AbstractPropertyMap.AbstractResiduePropertyMap --+
                                                 |
                                                DSSP

Run DSSP on a pdb file, and provide a handle to the
DSSP secondary structure and accessibility.

Note that DSSP can only handle one model.

Example:

    >>> p = PDBParser()
    >>> structure = p.get_structure("1MOT", "1MOT.pdb")
    >>> model = structure[0]
    >>> dssp = DSSP(model, "1MOT.pdb")
    >>> # DSSP data is accessed by a tuple (chain_id, res_id)
    >>> a_key = dssp.keys()[2]
    >>> # residue object, secondary structure, solvent accessibility,
    >>> # relative accessiblity, phi, psi
    >>> dssp[a_key]
    (<Residue ALA het=  resseq=251 icode= >,
    'H',
    72,
    0.67924528301886788,
    -61.200000000000003,
    -42.399999999999999)

@param model: the first model of the structure
@type model: L{Model}

@param pdb_file: a PDB file
@type pdb_file: string

@param dssp: the dssp executable (ie. the argument to os.system)
@type dssp: string