Atom Nomenclature for X67

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 X67

Atom Name (V3) Atom Name (V2)
C1 C1
N2 N2
N3 N3
C4 C4
C5 C5
C6 C6
C7 C7
F8 F8
C9 C9
C10 C10
C11 C11
O12 O12
N13 N13
C14 C14
N15 N15
N16 N16
H1N2 H1N2
H2N2 H2N2
H6 H6
H9 H9
H10 H10
HO12 HO12
H115 H115
H215 H215