Atom Nomenclature for 11U

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 11U

Atom Name (V3) Atom Name (V2)
C14 C14
O32 O32
C15 C15
N5 N5
C16 C16
C21 C21
C20 C20
C19 C19
C18 C18
C17 C17
N1 N1
C2 C2
C7 C7
O22 O22
C3 C3
C4 C4
C5 C5
N23 N23
C24 C24
C25 C25
C26 C26
C27 C27
C28 C28
C31 C31
N49 N49
N48 N48
C29 C29
C30 C30
H15 H15
H15A H15A
H20 H20
H21 H21
H301 H301
H31 H31
H28 H28
H291 H291
H261 H261
H271 H271
H241 H241
H25 H25
H22 H22
H23 H23
H2 H2
H3 H3
H3A H3A
H4 H4
H4A H4A
H5 H5
H5A H5A
HN23 HN23
H24 H24
H24A H24A
H26 H26
H27 H27
HN49 HN49
HN48 HN48
HN4A HN4A
H29 H29
H30 H30