Atom Nomenclature for TOR

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 TOR

Atom Name (V3) Atom Name (V2)
CAT CAT
CAU CAU
CAV CAV
OAR OAR
OAQ OAQ
CAK CAK
CAG CAG
OAF OAF
CAE CAE
CAD CAD
CAJ CAJ
OAA OAA
CAB CAB
CAC CAC
OAH OAH
CAL CAL
CAM CAM
OAN OAN
SAO SAO
OAS OAS
OAI OAI
NAP NAP
HAT HAT
HATA HATA
HATB HATB
HAV HAV
HAVA HAVA
HAVB HAVB
HAK HAK
HAG HAG
HAD HAD
HADA HADA
HADB HADB
HAJ HAJ
HAJA HAJA
HAJB HAJB
HAB HAB
HAC HAC
HACA HACA
HAM HAM
HAMA HAMA
HNAP HNAP
HNAA HNAA