Atom Nomenclature for 2PU

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 2PU

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
N5 N5
C6 C6
C7 C7
C8 C8
C9 C9
N10 N10
C11 C11
C12 C12
O13 O13
C14 C14
C15 C15
N16 N16
O17 O17
C18 C18
C19 C19
N20 N20
C21 C21
N22 N22
C23 C23
C24 C24
N25 N25
C26 C26
C27 C27
H2 H2
H61 1H6
H62 2H6
H8 H8
H9 H9
H10 H10
H111 1H11
H112 2H11
H121 1H12
H122 2H12
H14 H14
H16 H16
H19 H19
H22 H22
H23 H23
H241 1H24
H242 2H24
H25 H25
H261 1H26
H262 2H26
H271 1H27
H272 2H27