Atom Nomenclature for SUA

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 SUA

Atom Name (V3) Atom Name (V2)
S1 S1
O1 O1
O2 O2
N1 N1
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
N2 N2
C7 C7
S2 S2
O3 O3
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
S3 S3
C13 C13
HN11 HN11
HN12 HN12
H11 H11
H21 H21
H41 H41
H51 H51
HN21 HN21
H81 H81
H82 H82
H91 H91
H92 H92
H111 H111
H121 H121
H131 H131