Atom Nomenclature for 1AP

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 1AP

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C4 C4
C5 C5
C6 C6
C8 C8
N2 N2
N3 N3
N9 N9
N7 N7
N6 N6
P P
OP1 O1P
OP2 O2P
O5' O5'
C5' C5'
C4' C4'
O4' O4'
C1' C1'
C2' C2'
C3' C3'
O3' O3'
OP3 O3P
H81 1H8
HN21 1HN2
HN22 2HN2
HN61 1HN6
HN62 2HN6
H1P H1P
H52 2H5
H51 1H5
H4 H4
H11 1H1
H21 1H2
H22 2H2
H31 1H3
HO31 1HO3
H3P H3P