Atom Nomenclature for 38O

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 38O

Atom Name (V3) Atom Name (V2)
C1 C1
C3 C2
C4 C3
C6 C4
C7 C5
C8 C6
C12 C7
N13 N1
C15 C8
C16 C9
C17 C10
C18 C11
C21 C12
C23 C13
C24 C14
O29 O1
N2 N2
N5 N3
C9 C15
C10 C16
N11 N4
C14 C17
N19 N5
C20 C18
F22 F1
C25 C19
C26 C20
N27 N6
C28 C21
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H7 H7
H8 H8
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13
H14 H14
H15 H15
H16 H16
H18 H18
H20 H20
H21 H21
H22 H22
H23 H23