| Bioinformatics Toolbox™ | |
Visualize intermolecular distances in Protein Data Bank (PDB) file
pdbdistplot('PDBid')
pdbdistplot('PDBid', Distance)
PDBid | Unique identifier for a protein structure record. Each structure in the PDB is represented by a 4-character alphanumeric identifier. For example, 4hhb is the identification code for hemoglobin. |
Distance | Threshold distance in Angstroms shown on a spy plot. Default value is 7. |
pdbdistplot displays the distances between atoms and amino acids in a PDB structure.
pdbdistplot('PDBid') retrieves the entry PDBid from the Protein Data Bank (PDB) database and creates a heat map showing interatom distances and a spy plot showing the residues where the minimum distances apart are less than 7 Angstroms. PDBid can also be the name of a variable or a file containing a PDB MATLAB® structure.
pdbdistplot('PDBid', Distance) specifies the threshold distance shown on a spy plot.
Show spy plot at 7 Angstroms of the protein cytochrome C from albacore tuna.
pdbdistplot('5CYT');
Now take a look at 10 Angstroms.
pdbdistplot('5CYT',10);
Bioinformatics Toolbox™ functions: getpdb, molviewer, pdbread, proteinplot, ramachandran
| pam | pdbread | |
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