Atom Nomenclature for G47

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 G47

Atom Name (V3) Atom Name (V2)
P P
O1P O1P
O2P O2P
O3P O3P
O5' O5*
C5' C5*
C4' C4*
O4' O4*
C3' C3*
O3' O3*
C2' C2*
C1' C1*
N9 N9
C8 C8
N7 N7
C5 C5
C6 C6
O6 O6
N1 N1
C2 C2
N2 N2
N3 N3
C4 C4
C6A C6A
C7A C7A
SG SG
H1P H1P
H3P H3P
H5'1 1H5*
H5'2 2H5*
H4' H4*
H3' H3*
HA HA
H2'1 1H2*
H2'2 2H2*
H1' H1*
H8 H8
H1 H1
H2 H2
H6A1 1H6A
H6A2 2H6A
H7A1 1H7A
H7A2 2H7A
HS1 HS1