Atom Nomenclature for LW4

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 LW4

Atom Name (V3) Atom Name (V2)
N1 N1
C4 C4
C5 C5
C6 C6
C8 C8
C10 C10
C13 C13
C20 C20
C21 C21
C22 C22
C24 C24
C26 C26
C28 C28
C3 C3
C9 C9
N11 N11
O14 O14
O15 O15
C16 C16
N17 N17
C18 C18
N19 N19
N30 N30
C31 C31
C34 C34
N37 N37
C38 C38
C41 C41
C44 C44
C48 C48
C50 C50
C52 C52
C54 C54
HN1 HN1
H6 H6
H22 H22
H24 H24
H26 H26
H28 H28
HN11 HN11
H31 H31
H31A H31A
H34 H34
H34A H34A
H38 H38
H38A H38A
H41 H41
H41A H41A
H44 H44
H44A H44A
H44B H44B
H48 H48
H50 H50
H52 H52
H54 H54