Atom Nomenclature for QUM

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 QUM

Atom Name (V3) Atom Name (V2)
C2 C2
C3 C3
C4 C4
C11 C11
C12 C12
C1 C1
N10 N10
C14 C14
C13 C13
C9 C9
C5 C5
C6 C6
C7 C7
C8 C8
N18 N18
C19 C19
C20 C20
C21 C21
C22 C22
C23 C23
N24 N24
C27 C27
C25 C25
C28 C28
C26 C26
CL1 CL1
O15 O15
C17 C17
CL2 CL2
CL3 CL3
H3 H3
H4 H4
H1 H1
H10 H10
H5 H5
H7 H7
H8 H8
H19 H19
H201 1H20
H202 2H20
H203 3H20
H211 1H21
H212 2H21
H221 1H22
H222 2H22
H231 1H23
H232 2H23
H271 1H27
H272 2H27
H251 1H25
H252 2H25
H281 1H28
H282 2H28
H261 1H26
H262 2H26
H171 1H17
H172 2H17
H173 3H17