Atom Nomenclature for RRC

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 RRC

Atom Name (V3) Atom Name (V2)
OAP OAP
CAQ CAQ
CAR CAR
CAK CAK
CAI CAI
NAS NAS
CAT CAT
NAU NAU
CAV CAV
NAW NAW
CAZ CAZ
CAY CAY
CBA CBA
CAX CAX
CAN CAN
NAO NAO
NAL NAL
CAM CAM
NAJ NAJ
CAD CAD
CAE CAE
CAG CAG
CAH CAH
CAF CAF
CAC CAC
CAB CAB
HAP HAP
HAQ1 1HAQ
HAQ2 2HAQ
HAR HAR
HAK1 1HAK
HAK2 2HAK
HAI1 1HAI
HAI2 2HAI
HAI3 3HAI
HAS HAS
HAZ HAZ
HAY1 1HAY
HAY2 2HAY
HAY3 3HAY
HBA1 1HBA
HBA2 2HBA
HBA3 3HBA
HAX HAX
HAJ HAJ
HAD1 1HAD
HAD2 2HAD
HAG HAG
HAH HAH
HAF HAF
HAC HAC
HAB HAB