Atom Nomenclature for 6LI

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 6LI

Atom Name (V3) Atom Name (V2)
C1 C1
N1 N1
O1 O1
P1 P1
CL1 CL1
C2 C2
N2 N2
O2 O2
C3 C3
N3 N3
O3 O3
C4 C4
N4 N4
O4 O4
C5 C5
N5 N5
O5 O5
C6 C6
O6 O6
C7 C7
O7 O7
C8 C8
O8 O8
C9 C9
O9 O9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
H1 H1
H2 H2
HO2 HO2
H3 H3
HN3 HN3
HO3 HO3
H4 H4
H5 H5
H5A H5A
HN5 HN5
HN5A HN5A
H8 H8
H11 H11
H11A H11A
H12 H12
H12A H12A
H14 H14
H15 H15
H17 H17
H18 H18
HO8 HO8
HO9 HO9