Atom Nomenclature for MTW

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 MTW

Atom Name (V3) Atom Name (V2)
C C
N1 N1
C1 C1
N2 N2
N N
C2 C2
C3 C3
C4 C4
C17 C17
C18 C18
C6 C6
C5 C5
C7 C7
N3 N3
C8 C8
C9 C9
N4 N4
C10 C10
N5 N5
C11 C11
C14 C14
C12 C12
C13 C13
C16 C16
C15 C15
N6 N6
O2 O2
O1 O1
H H
H1 H1
H2C1 1H2C
H2C2 2H2C
H4 H4
H17 H17
H18 H18
H6 H6
H8C1 1H8C
H8C2 2H8C
H9 H9
H14 H14
H12 H12
H13 H13
H16 H16