Atom Nomenclature for X9I

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 X9I

Atom Name (V3) Atom Name (V2)
C1 C1
N1 N1
O1 O1
C2 C2
N2 N2
O2 O2
C3 C3
N3 N3
O3 O3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
O16 O16
O17 O17
H2 H2
H1N2 H1N2
H2N2 H2N2
HN3 HN3
H5 H5
H6 H6
H18 H18
H28 H28
H10 H10
H11 H11
H13 H13
H14 H14
H131 H131