Atom Nomenclature for 6OG

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 6OG

Atom Name (V3) Atom Name (V2)
P P
OP1 OP1
OP2 OP2
O5' O5'
N9 N9
C4 C4
N3 N3
C2 C2
N2 N2
N1 N1
C6 C6
O6 O6
C5 C5
N7 N7
C8 C8
C2' C2'
C5' C5'
C4' C4'
O4' O4'
C1' C1'
C3' C3'
O3' O3'
C C
HOP2 HOP2
HN21 HN21
HN22 HN22
H8 H8
H2' H2'
H2'' H2''
H5' H5'
H5'' H5''
H4' H4'
H1' H1'
H3' H3'
HO3' HO3'
H1 H1
H2 H2
H3 H3
OP3 OP3
HOP3 HOP3