Atom Nomenclature for 22U

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 22U

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C3 C3
O1 O1
C1 C1
C16 C16
C17 C17
C21 C21
C18 C18
C20 C20
C19 C19
N2 N2
C7 C7
C8 C8
O2 O2
C6 C6
C5 C5
C4 C4
N3 N3
C9 C9
C10 C10
C15 C15
C14 C14
C13 C13
C12 C12
C11 C11
CL1 CL1
HN1 HN1
HN1A HN1A
H2 H2
H1 H1
H1A H1A
H17 H17
H21 H21
H18 H18
H20 H20
H19 H19
H7 H7
H6 H6
H6A H6A
H5 H5
H5A H5A
H4 H4
H4A H4A
HN3 HN3
H9 H9
H9A H9A
H15 H15
H14 H14
H13 H13
H11 H11