Atom Nomenclature for CEL

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 CEL

Atom Name (V3) Atom Name (V2)
S1 S1
C15 C15
C14 C14
C13 C13
C12 C12
C17 C17
C16 C16
N2 N2
C3 C3
C5 C5
C10 C10
C9 C9
C8 C8
C11 C11
C7 C7
C6 C6
C2 C2
C1 C1
C4 C4
F3 F3
F2 F2
F1 F1
N1 N1
N3 N3
O2 O2
O1 O1
H14C CH14
H13C CH13
H17C CH17
H16C CH16
H10C CH10
HC9 HC9
H111 1H11
H112 2H11
H113 3H11
HC7 HC7
HC6 HC6
HC2 HC2
HN31 1HN3
HN32 2HN3