Atom Nomenclature for HE0

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 HE0

Atom Name (V3) Atom Name (V2)
S1 S1
C2 C2
C3 C3
N4 N4
C5 C5
C6 C6
C7 C7
N8 N8
C9 C9
O10 O10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
O17 O17
O18 O18
N19 N19
C20 C20
O21 O21
C22 C22
N23 N23
C24 C24
C25 C25
C26 C26
O27 O27
O28 O28
O29 O29
H3 H3
HN4 HN4
H5 H5
H6 H6
H7 H7
HN8 HN8
H11 H11
H11A H11A
H12 H12
H12A H12A
H13 H13
H13A H13A
H14 H14
H14A H14A
H15 H15
HO18 HO18
HN19 HN19
H22 H22
H22A H22A
HN23 HN23
HN2A HN2A
H24 H24
H24A H24A
H24B H24B
H25 H25
H25A H25A
H25B H25B
HO27 HO27