Atom Nomenclature for WRA

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 WRA

Atom Name (V3) Atom Name (V2)
C1 C1
N2 N2
C3 C3
N4 N4
C5 C5
N6 N6
O7 O7
C8 C8
C9 C9
C10 C10
O11 O11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
CM1 CM1
CM2 CM2
NH1 NH1
NH2 NH2
CL1 CL1
CL2 CL2
CL3 CL3
H81 1H8
H82 2H8
H91 1H9
H92 2H9
H101 1H10
H102 2H10
H14 H14
H17 H17
H11 1H1
H12 2H1
H13 3H1
H21 1H2
H22 2H2
H23 3H2
HH11 1HH1
HH12 2HH1
HH21 1HH2
HH22 2HH2