Atom Nomenclature for CZA

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 CZA

Atom Name (V3) Atom Name (V2)
O2 O2
C6 C6
C3 C3
C2 C2
O1 O1
C1 C1
C5 C5
C7 C7
C15 C15
C16 C16
N2 N2
C17 C17
C14 C14
C18 C18
C19 C19
C20 C20
C13 C13
C12 C12
C8 C8
C9 C9
C10 C10
C11 C11
N1 N1
C4 C4
O3 O3
HO3 HO3
H11 1H1
H12 2H1
H13 3H1
H5 H5
H7 H7
H161 1H16
HN2 HN2
H18 H18
H19 H19
H20 H20
H121 1H12
H122 2H12
H8 H8
H101 1H10
H102 2H10
H103 3H10
H111 1H11
H112 2H11
H113 3H11