Atom Nomenclature for X8Z

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 X8Z

Atom Name (V3) Atom Name (V2)
O1 O1
C4 C4
C2 C2
C1 C1
S S
C3 C3
H11C H11C
H12C H12C
H31C H31C
H32C H32C
H33C H33C
H H
H2 H2
N N
C8 C8
C9 C9
O3 O3
O2 O2
C5 C5
C6 C6
C7 C7
H8 H8
H51C H51C
H52C H52C
H71C H71C
H72C H72C
HA HA
H61C H61C
H62C H62C