Atom Nomenclature for BCN

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 BCN

Atom Name (V3) Atom Name (V2)
N1 N1
C1 C1
C2 C2
O21 O21
O22 O22
C3 C3
C4 C4
O4 O4
C5 C5
C6 C6
O6 O6
H11 1H1
H12 2H1
HO2 HO2
H31 1H3
H32 2H3
H41 1H4
H42 2H4
HO4 HO4
H51 1H5
H52 2H5
H61 1H6
H62 2H6
HO6 HO6