Atom Nomenclature for G98

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 G98

Atom Name (V3) Atom Name (V2)
N1 N1
N3 N3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C10 C10
C13 C13
C15 C15
C17 C17
C20 C20
C21 C21
C22 C22
C24 C24
O2 O2
C14 C14
C12 C12
C11 C11
C3 C3
C1 C1
O3 O3
C16 C16
C19 C19
C23 C23
C18 C18
N7 N7
C2 C2
N2 N2
C9 C9
N6 N6
N5 N5
O1 O1
N4 N4
H7 H7
H7A H7A
H8 H8
H8A H8A
H8B H8B
H15 H15
H15A H15A
H15B H15B
H17 H17
H17A H17A
H20 H20
H21 H21
H22 H22
H24 H24
HO2 HO2
H14 H14
H14A H14A
H14B H14B
H16 H16
H23 H23
H18 H18
H18A H18A
HN7 HN7
HN7A HN7A
H2 H2
HN6 HN6
HN6A HN6A
HN5 HN5
HN4 HN4