Atom Nomenclature for FIL

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 FIL

Atom Name (V3) Atom Name (V2)
O19 O19
C18 C18
N20 N20
O21 O21
N2 N2
C1 C1
C17 C17
C3 C3
C4 C4
C5 C5
C6 C6
O7 O7
C8 C8
C9 C9
C16 C16
O10 O10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
H201 1H20
H202 2H20
H171 1H17
H172 2H17
H173 3H17
H4 H4
H5 H5
H81 1H8
H82 2H8
H83 3H8
H16 H16
H11 H11
H121 1H12
H122 2H12
H131 1H13
H132 2H13
H141 1H14
H142 2H14
H151 1H15
H152 2H15