Atom Nomenclature for AH0

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 AH0

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
N2 N2
C7 C7
O7 O7
C8 C8
C3 C3
O3 O3
C4 C4
O4 O4
C5 C5
O5 O5
C6 C6
O6 O6
CA CA
CB CB
C C
O O
OXT OXT
H1 H1
H2 H2
HN2 HN2
H81 H81
H82 H82
H83 H83
H3 H3
H4 H4
HO4 HO4
H5 H5
H61 H61
H62 H62
HA HA
HB1 HB1
HB2 HB2
HB3 HB3
HXT HXT