Atom Nomenclature for BRY

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 BRY

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
N4 N4
C5 C5
C7 C7
C9 C9
C11 C11
C13 C13
C14 C14
C15 C15
N16 N16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
C22 C22
O23 O23
O1 O1
BR1 BR1
H4 H4
H5 H5
H7 H7
H9 H9
H11 H11
H16 H16
H19 H19
H20 H20
H22 H22