Atom Nomenclature for I3P

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 I3P

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
O1 O1
O2 O2
O3 O3
O4 O4
O5 O5
O6 O6
P1 P1
O11 O11
O12 O12
O13 O13
P4 P4
O41 O41
O42 O42
O43 O43
P5 P5
O51 O51
O52 O52
O53 O53
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
HO2 HO2
HO3 HO3
HO6 HO6
HO12 2HO1
HO13 3HO1
HO42 2HO4
HO43 3HO4
HO52 2HO5
HO53 3HO5