Atom Nomenclature for G9V

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 G9V

Atom Name (V3) Atom Name (V2)
C7 C1
C9 C2
N2 N1
C10 C3
C6 C4
C29 C5
N20 N2
C18 C6
C11 C7
C1 C8
C8 C9
C16 C10
C5 C11
O15 O1
N13 N3
C24 C12
C25 C13
C32 C14
C17 C15
C22 C16
O31 O2
C12 C17
C19 C18
C14 C19
N28 N4
C33 C20
C3 C21
C23 C22
C26 C23
C30 C24
O27 O3
N4 N5
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
H17 H17
H18 H18
H19 H19
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25