Atom Nomenclature for LAQ

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 LAQ

Atom Name (V3) Atom Name (V2)
O2P O2P
P P
O1P O1P
O3P O3P
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
S15 S15
S17 S17
C17 C17
C16 C16
O10 O10
O5' O5*
C5' C5*
C4' C4*
C3' C3*
O3' O3*
C2' C2*
O2' O2*
C1' C1*
O4' O4*
N9 N9
C8 C8
N7 N7
C5 C5
C6 C6
N6 N6
N1 N1
C2 C2
N3 N3
C4 C4
HO2P HO2P
H111 1H11
H112 2H11
H121 1H12
H122 2H12
H131 1H13
H132 2H13
H141 1H14
H142 2H14
H15 H15
H171 1H17
H172 2H17
H161 1H16
H162 2H16
H5'1 1H5*
H5'2 2H5*
H4' H4*
H3' H3*
HO3' HO3*
H2' H2*
HO2' HO2*
H1' H1*
H8 H8
HN61 1HN6
HN62 2HN6
H2 H2