Atom Nomenclature for CE7

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 CE7

Atom Name (V3) Atom Name (V2)
CB C1
ND2 N1
CA C3
O O1
C C4
O1 O2
CG C5
OD1 O3
N N2
HB2 H1
HB3 H2
HD21 H3
HD22 H4
HA H5
H6 H6
H7 H7
H H8
OXT OXT
H2 H9
HXT H10