Atom Nomenclature for DRH

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 DRH

Atom Name (V3) Atom Name (V2)
CAB CAB
CAO CAO
CBG CBG
CAZ CAZ
OAE OAE
OAD OAD
CAC CAC
OAX OAX
CBB CBB
CAK CAK
CAI CAI
CAJ CAJ
CAH CAH
CBA CBA
CAT CAT
CAV CAV
NBF NBF
CAU CAU
CAS CAS
CAR CAR
CAQ CAQ
CAP CAP
CAN CAN
CAA CAA
CBC CBC
OAY OAY
CBE CBE
CAM CAM
CAG CAG
CAF CAF
CAL CAL
CBD CBD
NAW NAW
HAB1 1HAB
HAB2 2HAB
HAB3 3HAB
HAO1 1HAO
HAO2 2HAO
HOAE HOAE
HAC1 1HAC
HAC2 2HAC
HAC3 3HAC
HAK HAK
HAI HAI
HAJ HAJ
HAH HAH
HAT1 1HAT
HAT2 2HAT
HAV1 1HAV
HAV2 2HAV
HAU1 1HAU
HAU2 2HAU
HAS1 1HAS
HAS2 2HAS
HAR1 1HAR
HAR2 2HAR
HAQ1 1HAQ
HAQ2 2HAQ
HAP1 1HAP
HAP2 2HAP
HAN1 1HAN
HAN2 2HAN
HAA1 1HAA
HAA2 2HAA
HAA3 3HAA
HAM HAM
HAG HAG
HAF HAF
HAL HAL