Atom Nomenclature for TRZ

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 TRZ

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C C
C9 C9
C10 C10
C11 C11
C13 C13
C12 C12
C14 C14
C15 C15
C16 C16
C17 C17
C7 C7
C8 C8
C18 C18
C19 C19
O2 O2
O3 O3
C6 C6
O O
H2 H2
H5 H5
H10 H10
H11 H11
H13 H13
H121 1H12
H122 2H12
H123 3H12
H141 1H14
H142 2H14
H143 3H14
H151 1H15
H152 2H15
H153 3H15
H161 1H16
H162 2H16
H163 3H16
H171 1H17
H172 2H17
H173 3H17
H71 1H7
H72 2H7
H73 3H7
H81 1H8
H82 2H8
H181 1H18
H182 2H18
HO3 HO3