Atom Nomenclature for 0AK

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 0AK

Atom Name (V3) Atom Name (V2)
N N
CA CA
C C
O O
CB CB
CG CG
OD1 OD1
OD2 OD2
C1 C1
C2 C2
CL CL
OXT OXT
H HN1
H2 HN2
HA HA
HBC1 HBC1
HBC2 HBC2
HXT HXT
H1C1 H1C1
H1C2 H1C2
H2C1 H2C1
H2C2 H2C2