PDBtool - Macromolecular Structure Browsing and Verification - v1.0
PDBtool is supported by the San Diego Supercomputer Center
Last Update July 23, 1996
What is PDBtool
PDBtool supports the browsing querying and verification (mainly geometry)
structure data as found in files from the Protein Data Back (PDB). Key features
- Browsing of structural components, namely, polypeptide chains (entities),
individual residues (subentities), het groups and assigned secondary
structure with corresponding highlighting in a
3-D viewer and renderer.
- A variety of graphical and textual structure verification tools
providing individual values,
summaries and comparison to the standard values of Engh and Huber.
In many cases values
selected in the verification displays will be highlighted in the
browsers and 3-D viewer.
Displays are available for main chain and side chain geometries (lengths, angles
, dihedrals), B
values, disulphide linkages, and non-bonded contacts.
- Limited querying by selection of specific amino acids or atom types.
Note: Since this is an X/Motif application and X-terminal or other
device supporting X can be used as a client. A color monitor is
- J.Biggs, C.Pu, A Groeniger & P.E.Bourne
J. App. Cryst. 1996, 29(4) 484-490.
PDBtool: An Interactive Browser and Geometry Checker for Protein
- Examples and Tutorial