Atom Nomenclature for 78Z

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 78Z

Atom Name (V3) Atom Name (V2)
C10 C1
C9 C2
N5 N1
C11 C3
N4 N2
C12 C4
N3 N3
N2 N4
C8 C5
C7 C6
C13 C7
C14 C8
F4 F1
F5 F2
N1 N5
C2 C9
C3 C10
C4 C11
C5 C12
N6 N6
C1 C13
C16 C14
F1 F3
F2 F4
F3 F5
H102 H1
H103 H2
H101 H3
H81 H4
H142 H5
H143 H6
H141 H7
H11 H8
H31 H9
H41 H10
H12 H11