Atom Nomenclature for LZ6

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 LZ6

Atom Name (V3) Atom Name (V2)
O37 O37
C35 C35
O36 O36
C34 C34
N38 N38
C33 C33
C32 C32
C30 C30
O31 O31
N29 N29
C21 C21
C22 C22
O28 O28
N23 N23
C24 C24
C25 C25
O27 O27
O26 O26
C20 C20
S13 S13
C12 C12
C11 C11
N7 N7
C8 C8
C9 C9
CL10 CL10
C1 C1
C6 C6
C5 C5
C4 C4
C3 C3
C2 C2
C14 C14
C15 C15
C16 C16
C17 C17
O18 O18
O19 O19
HO36 HO36
H34 H34
HN38 HN38
HN3A HN3A
H33 H33
H33A H33A
H32 H32
H32A H32A
HN29 HN29
H21 H21
HN23 HN23
H24 H24
H24A H24A
HO27 HO27
H20 H20
H20A H20A
H12 H12
H12A H12A
H11 H11
H11A H11A
H8 H8
H8A H8A
H9 H9
H9A H9A
H6 H6
H5 H5
H3 H3
H2 H2
H14 H14
H14A H14A
H15 H15
H15A H15A
H16 H16
H16A H16A
HO19 HO19