Atom Nomenclature for ABH

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 ABH

Atom Name (V3) Atom Name (V2)
N N
CA CA
C C
O O
OT OT
CB CB
CG CG
CD CD
CE CE
B B
O2 O2
O1 O1
O3 O3
HN1 1HN
HN2 2HN
HCA HCA
HOT1 1HOT
HCB1 1HCB
HCB2 2HCB
HCG1 1HCG
HCG2 2HCG
HCD1 1HCD
HCD2 2HCD
HCE1 1HCE
HCE2 2HCE
HO2 HO2
HO1 HO1
HO3 HO3