Atom Nomenclature for L1R

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 L1R

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
O4 O4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
N10 N10
C11 C11
O12 O12
C13 C13
C14 C14
C15 C15
CL1 CL1
C17 C17
O18 O18
C19 C19
C20 C20
N21 N21
C22 C22
CL2 CL2
C24 C24
C25 C25
H1C1 1H1C
H1C2 2H1C
H1C3 3H1C
H2 H2
H3C1 1H3C
H3C2 2H3C
H3C3 3H3C
H6 H6
H7 H7
H25 H25
H8 H8
H10 H10
H14 H14
H24 H24
H191 1H19
H192 2H19
H201 1H20
H202 2H20
H211 1H21
H212 2H21