Atom Nomenclature for TYQ

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 TYQ

Atom Name (V3) Atom Name (V2)
N N
CA CA
C C
O O
CB CB
CG CG
CD1 CD1
CD2 CD2
CE1 CE1
CE2 CE2
CZ CZ
OZ OZ
N5 N5
OH OH
OXT OXT
H H
H2 HN2
HA HA
HB2 1HB
HB3 2HB
HD2 HD2
HE1 HE1
HZ HOZ
HN51 HN51
HN52 HN52
HH HH
HXT HXT