Atom Nomenclature for KU4

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 KU4

Atom Name (V3) Atom Name (V2)
C1 C1
C10 C2
C11 C3
C12 C4
C13 C5
C14 C6
C15 C7
C16 C8
C17 C9
C18 C10
C19 C11
C2 C12
C20 C13
C21 C14
C22 C15
C23 C16
C24 C17
C25 C18
C26 C19
C3 C20
C4 C21
C5 C22
C6 C23
C7 C24
C8 C25
C9 C26
N1 N1
N2 N2
N3 N3
N4 N4
O1 O1
O2 O2
O3 O3
O4 O4
O5 O5
CL1 CL1
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H7 H7
H8 H8
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
H19 H19
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25
H26 H26
H27 H27