Atom Nomenclature for CE2

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 CE2

Atom Name (V3) Atom Name (V2)
C12 C12
C7 C7
C5 C5
C3 C3
C2 C2
O4 O4
N1 N1
O8 O8
C6 C6
C11 C11
C25 C25
O28 O28
O27 O27
N24 N24
C13 C13
C14 C14
H121 1H12
H122 2H12
H123 3H12
H61 1H6
H62 2H6
H11 H11
H241 1H24
H242 2H24
H243 3H24
H131 1H13
H132 2H13
H133 3H13
H141 1H14
H142 2H14
H143 3H14