Atom Nomenclature for UXH

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 UXH

Atom Name (V3) Atom Name (V2)
N1 N1
CL1 CL1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
C10 C10
N11 N11
N13 N13
C14 C14
N15 N15
O16 O16
C17 C17
N18 N18
O19 O19
C20 C20
H5 H5
HN11 HN11
HN1A HN1A
HN13 HN13
HN1B HN1B
HN15 HN15
HN1C HN1C
H20 H20
H20A H20A
H20B H20B