Atom Nomenclature for TCE

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 TCE

Atom Name (V3) Atom Name (V2)
O16 O16
C14 C14
O15 O15
C5 C5
C2 C2
P P
C3 C3
C6 C6
C8 C8
O10 O10
O9 O9
C1 C1
C4 C4
C11 C11
O12 O12
O13 O13
HO15 HO15
H5 H5
H5A H5A
H2 H2
H2A H2A
H3 H3
H3A H3A
H6 H6
H6A H6A
HO9 HO9
H1 H1
H1A H1A
H4 H4
H4A H4A
HO12 HO12