Atom Nomenclature for OHT

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 OHT

Atom Name (V3) Atom Name (V2)
C10 C10
C9 C9
C8 C8
C11 C11
C16 C16
C15 C15
C14 C14
C13 C13
C12 C12
C7 C7
C1 C1
C2 C2
C3 C3
C4 C4
O4 O4
C5 C5
C6 C6
C17 C17
C18 C18
C19 C19
C20 C20
O20 O20
C23 C23
C24 C24
N24 N24
C25 C25
C26 C26
C21 C21
C22 C22
H101 1H10
H102 2H10
H103 3H10
H91 1H9
H92 2H9
H16 H16
H15 H15
H14 H14
H13 H13
H12 H12
H2 H2
H3 H3
HO4 HO4
H5 H5
H6 H6
H18 H18
H19 H19
H231 1H23
H232 2H23
H241 1H24
H242 2H24
H251 1H25
H252 2H25
H253 3H25
H261 1H26
H262 2H26
H263 3H26
H21 H21
H22 H22