Atom Nomenclature for TTT

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 TTT

Atom Name (V3) Atom Name (V2)
C1 C1
C3 C3
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C16 C16
C19 C19
C20 C20
C21 C21
C22 C22
O7 O7
C17 C17
N01 N01
N2 N2
C6 C6
C01 C01
C5 C5
C18 C18
C4 C4
H9 H9
H12 H12
H13 H13
H14 H14
H16 H16
H16A H16A
H16B H16B
H20 H20
H21 H21
H22 H22
H17 H17
HN01 HN01
HN0A HN0A
HN2 HN2
H6 H6
H01 H01
H01A H01A
H01B H01B
H18 H18
H4 H4