These codes identify the chemical components in PDB entry files, and can be used to search and explore information on the RCSB PDB website.ĭetailed information about each chemical component is stored in the wwPDB Chemical Component Dictionary (CCD). For example, the ID code for alpha D-glucose is “GLC,” and the code for the heme cofactor found in proteins like myoglobin is “HEM”. This includes both standard amino acids (i.e., the 20 amino acids commonly found in proteins) and non-standard amino acids (e.g., hydroxyproline) or nucleotides (guanine) or ligands (glucose).

In the PDB archive, every chemical component is assigned an identifying code of not more than 3-characters.

Left, a metabolite (the ligand glucose bound to hexokinase in PDB entry 1bdg) Center, a cofactor (the ligand heme bound to myoglobin in PDB entry 1mbn) Right, a drug (the ligand taxol bound to tubulin in PDB entry 1jff)-this structure also includes two nucleotide ligands. Diversity, Equity, Inclusion, and Accessįigure 1: Examples of ligands (represented by balls) bound to proteins (represented by lines).Exploring the Structural Biology of Bioenergy.Exploring the Structural Biology of Cancer.

Amino acid structure download