Atom Nomenclature for 6C2

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 6C2

Atom Name (V3) Atom Name (V2)
O4 O1
C1 C11
O1 O11
O5 O51
C5 C51
C6 C61
O6B O61
C4 C41
C3 C31
O3 O31
C2 C21
N2 N2
C7 C7
C8 C8
O7 O7
C9 C9
O6A O10
H1 H12
H5 H13
HO6B H14
H4 H15
H3 H16
HO3 H17
H2 H18
H19 H19
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25
HO4 H2