Atom Nomenclature for TQV

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 TQV

Atom Name (V3) Atom Name (V2)
P P
C1 C1
C2 C2
O1P O1P
C3 C3
O2P O2P
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
O3P O3P
O4P O4P
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
O15 O15
H2 H2
H3 H3
H4 H4
H5 H5
H7 H7
H7A H7A
H7B H7B
H8 H8
H8A H8A
H10 H10
H11 H11
H12 H12
H13 H13
HO15 HO15
H4P H4P