Atom Nomenclature for CYG

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 CYG

Atom Name (V3) Atom Name (V2)
N N
CA CA
C C
O O
CB CB
SG SG
N1 N1
CA1 CA1
CB1 CB1
CG1 CG1
CD1 CD1
OE2 OE2
C1 C1
O1 O1
O2 O2
OXT OXT
H 1HN
H2 2HN
HA HA
HB2 1HB
HB3 2HB
HN11 1HN1
HN12 2HN1
HA1 HA1
HB13 1HB1
HB12 2HB1
HG13 1HG1
HG12 2HG1
HO2 HO2
HXT HXT