Atom Nomenclature for 78V

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 78V

Atom Name (V3) Atom Name (V2)
N N1
N1 N2
C6 C1
C5 C2
C4 C3
N4 N3
N3 N4
C2 C4
O2 O1
C C5
O O2
O1 O3
C1 C6
C3 C7
N2 N5
C7 C8
C8 C9
C9 C10
C12 C11
O4 O4
C11 C12
O3 O5
C10 C13
C15 C14
N6 N6
C16 C15
N7 N7
C17 C16
N8 N8
C14 C17
N5 N9
C13 C18
H8 H1
H9 H2
H12 H3
H5 H5
H1 H6
H H7
H2 H8
H4 H9
H3 H10
H6 H11
H7 H12
H11 H13
H10 H14
H13 H15
H14 H16
H15 H17
H19 H18
H20 H19
H17 H20
H18 H21
H16 H22
H22 H23
H23 H24
H24 H25
H21 H26