Atom Nomenclature for CD2

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 CD2

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
N10 N10
C11 C11
N12 N12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
N19 N19
N20 N20
C21 C21
C22 C22
C23 C23
C24 C24
O25 O25
N26 N26
O27 O27
H1 H1
H2 H2
H3 H3
H4 H4
H7 H7
H9 H9
H13 H13
H14 H14
H16 H16
H18 H18
H23 H23
H23A H23A
H24 H24
H24A H24A
HO25 HO25
HN26 HN26
HN2A HN2A