Atom Nomenclature for TYN

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 TYN

Atom Name (V3) Atom Name (V2)
N N
CA CA
CB CB
CG CG
CD1 CD1
CE1 CE1
CD2 CD2
CE2 CE2
CZ CZ
OC OC
C C
O O
OXT OXT
O1 O1
N1 N1
N2 N2
N3 N3
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
H 1HN
H2 2HN
HA HA
HB2 1HB
HB3 2HB
HD1 HD1
HE1 HE1
HD2 HD2
HE2 HE2
HXT HXT
HN1 HN1
HN2 HN2
HN31 1HN3
HN32 2HN3
H3 H3
H4 H4