Atom Nomenclature for MIC

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 MIC

Atom Name (V3) Atom Name (V2)
C1 C1
O1 O1
O2 O2
C2 C2
CM2 CM2
O7 O7
C3 C3
C4 C4
C5 C5
O3 O3
O4 O4
C6 C6
O5 O5
O6 O6
HO2 HO2
HM21 1HM2
HM22 2HM2
HM23 3HM2
HO7 HO7
H3 H3
H41 1H4
H42 2H4
HO4 HO4
HO6 HO6