Atom Nomenclature for PLH

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 PLH

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
N1 N1
N2 N2
N3 N3
O1 O1
O2 O2
O3 O3
O4 O4
H21 1H2
H22 2H2
H3 H3
H41 1H4
H42 2H4
H5 H5
H61 1H6
H62 2H6
H63 3H6
H71 1H7
H72 2H7
H73 3H7
H9 H9
H111 1H11
H112 2H11
H113 3H11
H121 1H12
H122 2H12
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
HN1 HN1
HN2 HN2
HN3 HN3
HO1 HO1