Atom Nomenclature for E36

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 E36

Atom Name (V3) Atom Name (V2)
O1 O1
C2 C2
C3 C3
O4 O4
C5 C5
C6 C6
C7 C7
C8 C8
N9 N9
C10 C10
N11 N11
C12 C12
C13 C13
S14 S14
C15 C15
C16 C16
O17 O17
C18 C18
C19 C19
C20 C20
C21 C21
C22 C22
C23 C23
S24 S24
O25 O25
CL26 CL26
O27 O27
N28 N28
H2 H2
H2A H2A
H3 H3
H3A H3A
H7 H7
HN11 HN11
H13 H13
H15 H15
H15A H15A
H19 H19
H22 H22
H23 H23
HN28 HN28
HN2A HN2A