Atom Nomenclature for 1KX

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 1KX

Atom Name (V3) Atom Name (V2)
C C
N N
O O
C01 C01
N01 N01
C02 C02
N02 N02
C03 C03
N03 N03
C04 C04
N04 N04
C05 C05
N05 N05
C06 C06
C07 C07
C08 C08
C09 C09
C10 C10
C11 C11
C12 C12
C13 C13
H H
HA HA
HN HN
H03 H03
H04 H04
H05 H05
HN05 HN05
HN0A HN0A
H06 H06
H07 H07
H09 H09
H09A H09A
H12 H12
H13 H13
H13A H13A
H16 H16
H08 H08
H18 H18