Atom Nomenclature for MG8

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 MG8

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
O8 O8
N N
C9 C9
C10 C10
O10 O10
C11 C11
O11 O11
C12 C12
O12 O12
C13 C13
O13 O13
C14 C14
O14 O14
C15 C15
H11A 1H1
H12A 2H1
H13A 3H1
H21 1H2
H22 2H2
H31 1H3
H32 2H3
H41 1H4
H42 2H4
H51 1H5
H52 2H5
H61 1H6
H62 2H6
H71 1H7
H72 2H7
H91 1H9
H92 2H9
H10 H10
HO10 HO10
H11 H11
HO11 HO11
H12 H12
HO12 HO12
H13 H13
HO13 HO13
H141 1H14
H142 2H14
HO14 HO14
H151 1H15
H152 2H15
H153 3H15