Atom Nomenclature for CWT

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 CWT

Atom Name (V3) Atom Name (V2)
CAA CAA
CAE CAE
CAF CAF
NAG NAG
CAH CAH
NAI NAI
CAJ CAJ
CAK CAK
NAL NAL
OAM OAM
CAN CAN
CAO CAO
CAP CAP
CAQ CAQ
CAR CAR
CAS CAS
CAT CAT
C21 C21
OAU OAU
CAV CAV
OAW OAW
HAA1 HAA1
HAA2 HAA2
HAA3 HAA3
HAF HAF
HAE1 HAE1
HAE2 HAE2
HAE3 HAE3
HAG HAG
HAN HAN
H211 H211
H212 H212
H213 H213
HAP HAP
HAT HAT
HAS HAS
HAV1 HAV1
HAV2 HAV2