Atom Nomenclature for E6A

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 E6A

Atom Name (V3) Atom Name (V2)
O40 O1
C23 C1
C24 C2
C37 C3
C36 C4
C35 C5
C34 C6
C25 C7
C26 C8
O38 O2
C27 C9
O41 O3
C22 C10
C6 C11
C5 C12
BR BR1
C4 C13
O20 O4
C18 C14
C13 C15
C1 C16
O19 O5
C17 C17
C16 C18
C15 C19
C14 C20
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