Atom Nomenclature for 53V

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 53V

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C6 C6
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C26 C26
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
C27 C27
C25 C25
C19 C19
O17 O17
C11 C11
C10 C10
C5 C5
C8 C8
N4 N4
N7 N7
N2 N2
N9 N9
H2 H2
H2A H2A
H2B H2B
H12 H12
H13 H13
H13A H13A
H13B H13B
H15 H15
H17 H17
H26 H26
H26A H26A
H26B H26B
H21 H21
H22 H22
H23 H23
H27 H27
H27A H27A
H27B H27B
H19 H19
H8 H8
H8A H8A
H8B H8B
HN7 HN7
HN7A HN7A
HN9 HN9
HN9A HN9A