Atom Nomenclature for G12

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 G12

Atom Name (V3) Atom Name (V2)
BR2 BR2
C9 C9
C8 C8
O15 O15
O7 O7
C10 C10
C13 C13
C5 C5
C6 C6
C4 C4
BR1 BR1
C1 C1
C2 C2
C3 C3
O11 O11
H131 1H13
H132 2H13
H133 3H13
H1 H1
H2 H2
HO11 HO11