Atom Nomenclature for BK1

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 BK1

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
N3 N3
C4 C4
C5 C5
C6 C6
CAA CAA
CAB CAB
NAC NAC
CAD CAD
CAE CAE
CAF CAF
CAG CAG
CAH CAH
CAI CAI
CAJ CAJ
CAL CAL
NAO NAO
CAQ CAQ
CAR CAR
CAS CAS
CAT CAT
CAW CAW
NAX NAX
H2 H2
HAA HAA
HAAA HAAA
HAAB HAAB
HAB HAB
HABA HABA
HABB HABB
HNAC HNAC
HNAA HNAA
HAD HAD
HAE HAE
HAF HAF
HAG HAG
HAH HAH
HAI HAI
HAJ HAJ
HAL HAL
HALA HALA
HAW HAW