Atom Nomenclature for 4MU

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 4MU

Atom Name (V3) Atom Name (V2)
C5 C5
C6 C6
C7 C7
C2 C2
C3 C3
C4 C4
O2 O2
O1 O1
CM4 CM4
C4A C4A
C8A C8A
C8 C8
O1' O1'
H5 H5
H6 H6
H3 H3
HM4 HM4
HM4A HM4A
HM4B HM4B
H8 H8
HO1' HO1'