Atom Nomenclature for 06W

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 06W

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
N3 N3
C4 C4
C5 C5
C6 C6
CAA CAA
NAH NAH
CAI CAI
NAJ NAJ
CAK CAK
CAL CAL
CAM CAM
CAN CAN
CAO CAO
CAP CAP
CAQ CAQ
CAR CAR
CAS CAS
CAT CAT
CAU CAU
CAV CAV
CAW CAW
NAX NAX
CAY CAY
CAZ CAZ
OBA OBA
CBB CBB
HAA HAA
HNAH HNAH
HNAA HNAA
HAI HAI
HAIA HAIA
HNAJ HNAJ
HNAB HNAB
HAM HAM
HAN HAN
HANA HANA
HANB HANB
HAP HAP
HAR HAR
HAT HAT
HAV HAV
HAW HAW
HAY HAY
HAZ HAZ
HAZA HAZA
HAZB HAZB
HBB HBB
HBBA HBBA
HBBB HBBB