Atom Nomenclature for LSN

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 LSN

Atom Name (V3) Atom Name (V2)
CL CL1
C17 C1
C15 C2
C16 C3
O O1
N6 N1
C18 C4
C19 C5
C20 C6
C21 C7
C22 C8
N5 N2
C12 C9
C11 C10
C10 C11
C9 C12
C13 C13
C14 C14
C8 C15
C7 C16
C6 C17
C5 C18
C4 C19
C3 C20
C2 C21
C1 C22
N1 N3
N4 N4
N3 N5
N2 N6
H1 H1
H2 H2
H3 H3
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
H4 H4