Atom Nomenclature for LZD

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 LZD

Atom Name (V3) Atom Name (V2)
C2 C2
C3 C3
C4 C4
C5 C5
N6 N6
C7 C7
O8 O8
C9 C9
N10 N10
N11 N11
C12 C12
C13 C13
N14 N14
C15 C15
O16 O16
C17 C17
C18 C18
F19 F19
C20 C20
C21 C21
C22 C22
C23 C23
F24 F24
C25 C25
N26 N26
H2C1 1H2C
H2C2 2H2C
H3C1 1H3C
H3C2 2H3C
H26 H26
H4C1 1H4C
H4C2 2H4C
H5 H5
H6 H6
H251 1H25
H252 2H25
H12 H12
H20 H20
H21 H21
H22 H22
H11 H11
H14 H14