Atom Nomenclature for ZZY

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 ZZY

Atom Name (V3) Atom Name (V2)
O11 O11
C10 C10
N12 N12
C5 C5
C3 C3
C1 C1
C6 C6
N4 N4
C2 C2
C8 C8
C7 C7
N9 N9
S13 S13
O16 O16
O15 O15
C14 C14
C21 C21
N22 N22
O23 O23
O24 O24
C20 C20
C18 C18
C17 C17
C19 C19
H121 H121
H122 H122
H3 H3
H6 H6
H8 H8
H7 H7
H20 H20
H19 H19
H18 H18
H17 H17