Atom Nomenclature for LS4

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 LS4

Atom Name (V3) Atom Name (V2)
O5 O5
C6 C6
N7 N7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
N16 N16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
C22 C22
S23 S23
O24 O24
O25 O25
N26 N26
C27 C27
S28 S28
C29 C29
C30 C30
N31 N31
H71 1H7
H91 1H9
H101 1H10
H111 1H11
H121 1H12
H151 1H15
H16N NH16
H181 1H18
H191 1H19
H211 1H21
H221 1H22
H26N NH26
H291 1H29
H301 1H30