Atom Nomenclature for HS9

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 HS9

Atom Name (V3) Atom Name (V2)
N N
CA CA
CB CB
CG CG
ND1 ND1
CD2 CD2
CE1 CE1
NE2 NE2
C C
O O
NXT NXT
CM CM
HA HA
HM1C HM1C
HM2C HM2C
HM3C HM3C
H H
HB1C HB1C
HB2C HB2C
HXT1 HXT1
HXT2 HXT2
HD2 HD2
HE1 HE1
HE2 HE2