Atom Nomenclature for BHE

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 BHE

Atom Name (V3) Atom Name (V2)
C1 C1
O1 O1
C2 C2
O2 O2
C3 C3
O3 O3
C4 C4
O4 O4
C5 C5
O5 O5
C6 C6
O6 O6
C6B C6B
C5B C5B
C4B C4B
C3B C3B
C2B C2B
C1B C1B
C1A C1A
O5A O5A
C5A C5A
C6A C6A
C4A C4A
O4A O4A
C3A C3A
O3A O3A
C2A C2A
O2A O2A
H1 H1
H2 H2
HO2 HO2
H3 H3
HO3 HO3
H4 H4
HO4 HO4
H5 H5
H6 H6
H6A H6A
H6B H6B
HO6 HO6
H6BA H6BA
C19 C19
H6BB H6BB
H5B H5B
H5BA H5BA
H4B H4B
H4BA H4BA
H3B H3B
H3BA H3BA
H2B H2B
H2BA H2BA
H1B H1B
H1BA H1BA
H1A H1A
H5A H5A
H6AA H6AA
H6AB H6AB
H4A H4A
HO4A HO4A
H3A H3A
HO3A HO3A
H2A H2A
H34 H34
H35 H35
C20 C20
H36 H36
H37 H37
H38 H38