Atom Nomenclature for ISW

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 ISW

Atom Name (V3) Atom Name (V2)
FE FE
NA NA
NB NB
NC NC
ND ND
C1A C1A
O1A O1A
C1B C1B
C1C C1C
C1D C1D
O1D O1D
C2A C2A
O2A O2A
C2B C2B
C2C C2C
C2D C2D
O2D O2D
C3A C3A
C3B C3B
C3C C3C
C3D C3D
C4A C4A
C4B C4B
C4C C4C
C4D C4D
CAA CAA
CAB CAB
CAC CAC
CAD CAD
CBA CBA
CBB CBB
CBC CBC
CBD CBD
CGA CGA
CGD CGD
CHA CHA
CHB CHB
CHC CHC
CHD CHD
CMA CMA
CMB CMB
CMC CMC
CMD CMD
HO1D HO1D
HO2A HO2A
HAA HAA
HAAA HAAA
HAB HAB
HAC HAC
HAD HAD
HADA HADA
HBA HBA
HBAA HBAA
HBB HBB
HBBA HBBA
HBC HBC
HBCA HBCA
HBD HBD
HBDA HBDA
HHA HHA
HHB HHB
HHC HHC
HHD HHD
HMA HMA
HMAA HMAA
HMAB HMAB
HMB HMB
HMBA HMBA
HMBB HMBB
HMC HMC
HMCA HMCA
HMCB HMCB
HMD HMD
HMDA HMDA
HMDB HMDB
H33 H33
H34 H34