Atom Nomenclature for E59

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 E59

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C3 C3
C4 C4
N5 N5
C6 C6
O7 O7
C8 C8
S9 S9
C10 C10
C11 C11
O12 O12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
S19 S19
O20 O20
O21 O21
N22 N22
H1 H1
H3 H3
H8 H8
H8A H8A
H8B H8B
H10 H10
H10A H10A
H14 H14
H15 H15
H17 H17
H18 H18
HN22 HN22
HN2A HN2A