Atom Nomenclature for ELY

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 ELY

Atom Name (V3) Atom Name (V2)
C C
N N
O O
CA CA
CB CB
CD CD
CE CE
CG CG
NZ NZ
CH1 CH1
CH2 CH2
CT1 CT1
CT2 CT2
OXT OXT
H H
H2 H2
HXT HXT
HA HA
HB2 HB
HB3 HBA
HD2 HD
HD3 HDA
HE2 HE
HE3 HEA
HG2 HG
HG3 HGA
HH1 HH1
HH1A HH1A
HH2 HH2
HH2A HH2A
HT1 HT1
HT1A HT1A
HT1B HT1B
HT2 HT2
HT2A HT2A
HT2B HT2B