Atom Nomenclature for ENH

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 ENH

Atom Name (V3) Atom Name (V2)
CL1 CL1
CL2 CL2
CL3 CL3
CL CL
CL8 CL8
CL9 CL9
C11 C11
C12 C12
C5 C5
C C
C9 C9
C10 C10
C8 C8
N N
C6 C6
O O
C7 C7
O1 O1
CN CN
H1 1H
H91 1H9
H11 1H1
H12 2H1
H13 3H1