Atom Nomenclature for K7D

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 K7D

Atom Name (V3) Atom Name (V2)
C10 C1
C13 C2
C15 C3
C17 C4
C02 C5
C04 C6
C05 C7
C07 C8
C08 C9
C09 C10
C11 C11
C12 C12
C14 C13
C16 C14
C18 C15
C19 C16
N06 N1
O01 O1
O03 O2
O20 O3
H1 H1
H2 H2
H3 H3
H4 H4
H6 H6
H7 H7
H8 H8
H9 H9
H10 H10
H11 H11
H5 H5