Atom Nomenclature for F97

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 F97

Atom Name (V3) Atom Name (V2)
C5 C1
C6 C2
C7 C3
C10 C4
N12 N1
C15 C5
C21 C6
C22 C7
C24 C8
C28 C9
C1 C10
C2 C11
C3 C12
N4 N2
N8 N3
C9 C13
C11 C14
N13 N4
C14 C15
C16 C16
N17 N5
C18 C17
N19 N6
N20 N7
C23 C18
F25 F1
F26 F2
C27 C19
C29 C20
N30 N8
C31 C21
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
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
H19 H19
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H26 H26
H27 H27