Atom Nomenclature for CFN

The atom nomenclature in PDB data files was revised with the release of data in the PDB Format Version 3.0. These changes make the PDB atom names used by PDB compliant with existing IUPAC nomenclature for standard amino acid and nucleotides (Pure & Appl. Chem., 70, 117-142, 1998) with the exception of the well established convention for C-terminal atoms OXT and HXT. A small number of additional changes were introduced in Version 3 to make atom labeling more conventional. The following chemical diagrams and tables provide the correspondences between atom names used in Version 3 and Version 2 PDB formats.

Labeled Chemical Diagrams

Chemical diagram with format V3 atom labels (heavy atoms)
Chemical diagram with format V3 atom labels (all atoms)
Chemical diagram with format V2 atom labels (heavy atoms)
Chemical diagram with format V2 atom labels (all atoms)

Atom Name Correspondences for CFN

Atom Name (V3) Atom Name (V2)
S3A S3A
FE4 FE4
S1A S1A
S4A S4A
FE3 FE3
S2A S2A
FE7 FE7
S4B S4B
MO1 MO1
S1B S1B
FE6 FE6
FE2 FE2
FE1 FE1
FE5 FE5
S2B S2B
S3B S3B
S5A S5A
NX NX