Atom Nomenclature for 60T

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 60T

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
F2 F1
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
N1 N1
N2 N2
N3 N3
N4 N4
C8 C8
C10 C9
C17 C10
C16 C11
C15 C12
C14 C13
C13 C14
F1 F2
C12 C15
C9 C16
O1 O1
N5 N5
C11 C17
N N6
C18 C18
C C19
F F3
O O2
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H8 H8
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
H19 H19
H20 H20