pdb

What is a .pdb file?

chemical/x-pdb

A PDB file (.pdb, Protein Data Bank format) is a plain-text format for 3D molecular structures, using fixed-column ATOM and HETATM records for atom coordinates plus CONECT records for bonds. It is the classic format for proteins and small molecules in structural biology.

How to use a .pdb file

Use an example .pdb file to test molecular-structure parsers and viewers (PyMOL, Jmol, NGL), coordinate extraction, and PDB-to-mmCIF or PDB-to-MOL conversion.

Download example .pdb file

PDB Structure — Water (.pdb)The same water molecule in PDB format with fixed-column HETATM coordinate records and a CONECT bond record — for testing molecular-structure parsers and viewers and PDB/MOL conversion.

Convert a .pdb file to another format

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