Atom Nomenclature for DYH

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 DYH

Atom Name (V3) Atom Name (V2)
CAA CAA
NH NH
CAH CAH
CAG CAG
OAC OAC
CAP CAP
OAQ OAQ
CAR CAR
CAS CAS
CAI CAI
OAJ OAJ
CAK CAK
CAE CAE
OAB OAB
OAF OAF
CB CB
CA CA
C C
OXT OXT
O O
N N
HAA HAA
HAAA HAAA
HAAB HAAB
HNH HNH
HAH HAH
HAG HAG
HOAC HOAC
HAP HAP
HAPA HAPA
HAR HAR
HAS HAS
HASA HASA
HAI HAI
HOAB HOAB
HB HB
HBA HBA
HA HA
HO HO
HN HN
HNA HNA