Atom Nomenclature for 43A

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 43A

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
O7 O7
O8 O8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
N16 N16
C17 C17
C18 C18
O19 O19
C20 C20
C21 C21
N22 N22
C23 C23
C24 C24
C25 C25
H3 H3
H5 H5
H6 H6
HO7 HO7
H91 1H9
H92 2H9
H93 3H9
H11 H11
H14 H14
H15 H15
H16 H16
H20 H20
H22 H22
H23 H23
H24 H24
H25 H25