Atom Nomenclature for 7MK

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 7MK

Atom Name (V3) Atom Name (V2)
C1 C1
C10 C2
C11 C3
C2 C4
C3 C5
C4 C6
C5 C7
C6 C8
C7 C9
C8 C10
C9 C11
N1 N1
O1 O1
O2 O2
H1 H1
H9 H2
H10 H3
H11 H4
H2 H5
H3 H6
H4 H7
H6 H8
H5 H9
H8 H10
H7 H11
H15 H12
H16 H13
H12 H15
H13 H16
H14 H14