Atom Nomenclature for LOR

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 LOR

Atom Name (V3) Atom Name (V2)
CL CL
C1 C1
O1 O1
C2 C2
N2 N2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
N8 N8
C21 C21
O21 O21
C22 C22
N22 N22
C23 C23
C24 C24
C25 C25
C26 C26
C27 C27
C28 C28
O81 O81
O82 O82
H1 H1
H2 H2
HN2 HN2
H3 H3
H4 H4
H4A H4A
H5 H5
H5A H5A
H6 H6
H22 H22
HN22 HN22
HN2A HN2A
H24 H24
H25 H25
H26 H26
H27 H27
H28 H28
HO82 HO82