Atom Nomenclature for CS4

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 CS4

Atom Name (V3) Atom Name (V2)
OXT O
C C
CA CA
N N
CB CB
SG SG
C1J C1J
C1K C1K
C1N C1N
O1C O1C
C1Q C1Q
C1I C1I
C1H C1H
C1G C1G
C1O C1O
CL1D CL1D
C1P C1P
CL1E CL1E
O OXT
HO HO
HA HA
H 1HN
H2 2HN
HB2 1HB
HB3 2HB
H1J1 1H1J
H1J2 2H1J
H1K1 1H1K
H1K2 2H1K
H1I H1I
H1H H1H
H1G H1G