Atom Nomenclature for 88Q

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 88Q

Atom Name (V3) Atom Name (V2)
O5 O5
C11 C11
C10 C10
C9 C9
C8 C8
O4 O4
C12 C12
O6 O6
C7 C7
C5 C5
O3 O3
C6 C6
C4 C4
C3 C3
C2 C2
O2 O2
C1 C1
O1 O1
H5 H5
H111 H111
H112 H112
H91C H91C
H92C H92C
H4 H4
H121 H121
H122 H122
H81C H81C
H82C H82C
H7 H7
HA HA
H41C H41C
H42C H42C
H61C H61C
H62C H62C
H31C H31C
H32C H32C
H2 H2
H11C H11C
H12C H12C
H1 H1