Atom Nomenclature for EO7

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 EO7

Atom Name (V3) Atom Name (V2)
C19 C1
C22 C2
C21 C3
C23 C4
C26 C5
C4 C6
C2 C7
C7 C8
C16 C9
C9 C10
N20 N1
N28 N2
N25 N3
N18 N4
N24 N5
N13 N6
O12 O1
O14 O2
O15 O3
O6 O4
O1 O5
O10 O6
S11 S1
CL CL1
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H7 H7
H8 H8
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13