Atom Nomenclature for JIN

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 JIN

Atom Name (V3) Atom Name (V2)
C10 C10
C12 C12
C13 C13
C15 C15
C16 C16
C19 C19
C20 C20
C27 C27
C30 C30
C31 C31
C34 C34
F35 F35
C29 C29
C28 C28
C26 C26
N08 N08
C04 C04
N03 N03
C02 C02
N05 N05
C06 C06
N11 N11
O14 O14
C09 C09
C01 C01
C18 C18
C17 C17
CL4 CL4
CL5 CL5
H10 H10
H131 1H13
H132 2H13
H133 3H13
H15 H15
H16 H16
H31 H31
H341 1H34
H342 2H34
H343 3H34
H28 H28
H26 H26
HN08 HN08
H02 H02
H17 H17