Atom Nomenclature for LZC

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 LZC

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
N4 N4
C5 C5
C6 C6
C7 C7
N8 N8
C9 C9
C10 C10
C11 C11
C12 C12
N13 N13
C14 C14
C15 C15
N16 N16
C17 C17
C18 C18
C19 C19
N20 N20
C21 C21
N22 N22
N23 N23
H1C1 1H1C
H1C2 2H1C
H1C3 3H1C
H2 H2
H3C1 1H3C
H3C2 2H3C
H3C3 3H3C
H4 H4
H6 H6
H8 H8
H9 H9
H101 1H10
H102 2H10
H151 1H15
H152 2H15
H111 1H11
H112 2H11
H12 H12
H131 1H13
H132 2H13
H141 1H14
H142 2H14
H21 H21