Atom Nomenclature for G20

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 G20

Atom Name (V3) Atom Name (V2)
C1 C1
O1A O1A
O1B O1B
C2 C2
C3 C3
C4 C4
C5 C5
N5 N5
C10 C10
O10 O10
C11 C11
C6 C6
O6 O6
C7 C7
O7 O7
N8 N8
C81 C81
C9 C9
C91 C91
C92 C92
NE NE
CZ CZ
NH1 NH1
NH2 NH2
HO1 HO1
H3 H3
H4 H4
H5 H5
HN5 HN5
H111 H111
H112 H112
H113 H113
H6 H6
H811 H811
H812 H812
H813 H813
H91 H91
H92 H92
H911 H911
H912 H912
H921 H921
H922 H922
H923 H923
HNE HNE
HN1 HN1
HN21 HN21
HN22 HN22