Atom Nomenclature for ROL

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 ROL

Atom Name (V3) Atom Name (V2)
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
C10 C10
C3 C3
C2 C2
C1 C1
O1 O1
N1 N1
C4 C4
O3 O3
C11 C11
C15 C15
C14 C14
C13 C13
C12 C12
O2 O2
C16 C16
H61 1H6
H91 1H9
H101 1H10
H31 1H3
H21 1H2
H22 2H2
H1 H1
H41 1H4
H42 2H4
H111 1H11
H151 1H15
H152 2H15
H141 1H14
H142 2H14
H131 1H13
H132 2H13
H121 1H12
H122 2H12
H161 1H16
H162 2H16
H163 3H16