PDBRead is a function that will read a Protein Data Bank file into a MATLAB structure.
PDB_struct = PDBRead(filename) reads the file corresponding to filename and stores the information contained in this file in the PDB_struct. e.g. PDB_struct = PDBRead('PDBSilk.txt')
The file that is being read by PDBRead should be compatible to the PDB file format described at the RCSB (Research Collaboratory for Structural Bioinformatics) web site. For more information about this format, please visit the following URL:
http://www.rcsb.org/pdb/docs/format/pdbguide2.2/guide2.2_frame.html
The file "PDBSilk.txt" mentioned in the sample code above was obtained from the following web site:
http://cmm.info.nih.gov/modeling/pdb_at_a_glance.html
The current version of this function can recognize the standard record types mentioned at the above URL. The information stored in the output structure can be extracted by using the . (dot) operator similar to a normal structure in MATLAB. e.g PDB_struct.HEADER will give the information about the HEADER record type.
Each record type has format fields. For more information about the fields,please visit the above mentioned URL. Information for each field for a record type can be accessed by using the . (dot) operator. e.g. PDB_struct.HEADER.depDate gives the deposition date for the particular molecule structure. The field names used for a particular record type are according to the information contained at the RCSB web site. |
