Atom Nomenclature for HMN

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 HMN

Atom Name (V3) Atom Name (V2)
C1 C1
O1A O1A
O1B O1B
C2 C2
O2 O2
C3 C3
C4 C4
O4 O4
C5 C5
N2 N2
C10 C10
O10 O10
C11 C11
C6 C6
O6 O6
C7 C7
O7 O7
C8 C8
O8 O8
C9 C9
O9 O9
HO1B HO1B
HC2 HC2
HO2 HO2
HC31 1HC3
HC32 2HC3
HC4 HC4
HO4 HO4
HC5 HC5
HN2 HN2
H111 1H11
H112 2H11
H113 3H11
HC6 HC6
HO6 HO6
HC7 HC7
HO7 HO7
HC8 HC8
HO8 HO8
HC91 1HC9
HC92 2HC9
HO9 HO9