Atom Nomenclature for ED7

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 ED7

Atom Name (V3) Atom Name (V2)
CAA CAA
CBA CBA
CAL CAL
CAJ CAJ
CAK CAK
CAQ CAQ
CBF CBF
SBJ SBJ
OAD OAD
OAE OAE
NBH NBH
CAX CAX
CBC CBC
CAM CAM
CAH CAH
CAG CAG
CAI CAI
CAN CAN
CAW CAW
CAV CAV
NBG NBG
CBD CBD
CAR CAR
CAO CAO
CBB CBB
CAF CAF
NAC NAC
CAP CAP
CAS CAS
CAY CAY
CBE CBE
CAT CAT
NAZ NAZ
CAU CAU
NBI NBI
CAB CAB
HAA HAA
HAAA HAAA
HAAB HAAB
HAL HAL
HAJ HAJ
HAK HAK
HAQ HAQ
HAX HAX
HAXA HAXA
HAM HAM
HAH HAH
HAG HAG
HAI HAI
HAN HAN
HAW HAW
HAWA HAWA
HAV HAV
HAVA HAVA
HAR HAR
HAO HAO
HAP HAP
HAS HAS
HAY HAY
HAYA HAYA
HAT HAT
HAU HAU
HAB HAB
HABA HABA
HABB HABB