Atom Nomenclature for VBZ

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 VBZ

Atom Name (V3) Atom Name (V2)
O2 O2
C2 C2
C3 C3
O3 O3
C4 C4
O4 O4
C5 C5
C6 C6
O6 O6
C7 C7
C8 C8
N1 N1
C1 C1
C9 C9
C10 C10
C11 C11
C12 C12
C15 C15
C14 C14
C13 C13
H2 H2
HA HA
H3 H3
H1 H1
HB HB
H4 H4
H5 H5
H8C1 1H8C
H8C2 2H8C
H6C1 1H6C
H6C2 2H6C
H7C1 1H7C
H7C2 2H7C
H6 H6
H9C1 1H9C
H9C2 2H9C
H11 H11
H15 H15
H12 H12
H13 H13
H14 H14