Atom Nomenclature for TFI

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 TFI

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
N1 N1
N2 N2
N3 N3
N4 N4
N5 N5
O1 O1
O2 O2
O3 O3
O4 O4
O5 O5
F1 F1
F2 F2
F3 F3
S1 S1
H3 H3
H4 H4
H51 1H5
H52 2H5
H53 3H5
H61 1H6
H62 2H6
H63 3H6
H81 1H8
H82 2H8
H11 H11
H14 H14
H15 H15
H17 H17
H18 H18
H191 1H19
H192 2H19
H193 3H19
HN1 HN1
HN4 HN4
HN51 1HN5
HN52 2HN5