Atom Nomenclature for BE0

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 BE0

Atom Name (V3) Atom Name (V2)
N1 N1
O1 O1
S1 S1
O2 O2
N2 N2
CB1 CB1
CC1 CC1
CD1 CD1
CC2 CC2
CB2 CB2
HN2 HN2
HN2A HN2A
HB1 HB1
HB1A HB1A
HC1 HC1
HC1A HC1A
HD1 HD1
HD1A HD1A
HC2 HC2
HC2A HC2A
HB2 HB2
HB2A HB2A