Atom Nomenclature for 52A

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 52A

Atom Name (V3) Atom Name (V2)
N N
CA CA
C C
O O
OXT OXT
CB1 CB1
CB2 CB2
CG1 CG1
NG2 NG2
CD CD
OE1 OE1
OE2 OE2
HN1 1HN
HN2 2HN
HOXT HOXT
HB11 1HB1
HB12 2HB1
HB21 1HB2
HB22 2HB2
HG1 HG1
HNG2 HNG2
HOE2 HOE2