Atom Nomenclature for TKT

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 TKT

Atom Name (V3) Atom Name (V2)
C12 C12
O4 O4
C8 C8
C9 C9
C11 C11
O3 O3
C7 C7
C6 C6
N1 N1
C5 C5
C4 C4
C1 C1
C2 C2
C3 C3
C13 C13
C15 C15
C16 C16
C17 C17
C18 C18
N10 N10
C21 C21
H11 H11
H81C H81C
H82C H82C
H83C H83C
H10 H10
H3 H3
H71C H71C
H72C H72C
H61C H61C
H62C H62C
H1 H1
H5 H5
H41C H41C
H42C H42C
H21C H21C
H22C H22C
H13 H13
H18 H18
H21 H21
H17 H17