Atom Nomenclature for E9A

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 E9A

Atom Name (V3) Atom Name (V2)
C8 C1
N1 N1
C7 C2
O O1
C6 C3
C5 C4
C1 C5
C2 C6
C3 C7
C4 C8
N N2
C C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
C26 C26
C9 C27
O1 O2
O2 O3
H16 H1
H14 H2
H15 H3
H13 H4
H12 H5
H11 H6
H10 H7
H9 H8
H3 H9
H4 H10
H5 H11
H7 H12
H6 H13
H8 H14
H2 H15
H1 H16
H H17
H20 H18
H19 H19
H23 H20
H22 H21
H21 H22
H24 H23
H25 H24
H26 H25
H27 H26
H29 H27
H28 H28
H30 H29
H31 H30
H32 H31
H33 H32
H34 H33
H18 H34
H17 H35