pdbdistplot

Visualize intermolecular distances in Protein Data Bank (PDB) file

Syntax

pdbdistplot(PDBid) pdbdistplot(PDBid, Distance) pdbdistplot(___,'Chain',ChainID) pdbdistplot(___,'Model',ModelNum) pdbdistplot(___,'Hetero',TF)

Arguments

`PDBid`	Any of the following: Character vector or string specifying a unique identifier for a protein structure record. Name of a variable for a MATLAB^® structure containing PDB information for a molecular structure, such as returned by `getpdb` or `pdbread`. Name of file containing PDB information for a molecular structure, such as created by `getpdb` with the `'ToFile'` property. Note Each structure in the PDB database is represented by a four-character alphanumeric identifier. For example, `4hhb` is the identification code for hemoglobin.
`Distance`	Threshold distance in angstroms shown on a spy plot. Default is `7`.
`ChainID`	Any of the following: Character vector or string specifying the chain ID to consider. Cell arrays of character vectors or string vector specifying the list of chain IDs to consider. `ChainID` is case-sensitive. By default, all chains included in the model are considered.
`ModelNum`	Positive integer specifying which model to consider. Default is 1.

Description

pdbdistplot displays the distances between atoms and between residues in a PDB structure.

pdbdistplot(PDBid) retrieves the structure specified by PDBid from the PDB database and creates a heat map showing inter–residue distances and a spy plot showing the residues where the minimum distances apart are less than 7 angstroms. If multiple chains are present in PDBid, separate plots are created.

pdbdistplot(PDBid, Distance) specifies the threshold distance shown on a spy plot. Default is 7.

pdbdistplot(___,'Chain',ChainID) specifies the chains to consider. By default, all chains included in the model are considered.

pdbdistplot(___,'Model',ModelNum) specifies which PDB structural model to consider. Default is 1.

pdbdistplot(___,'Hetero',TF) specifies whether to include hetero atoms in the plot of residue interactions. TF is logical, true or false. Default is false.