Atom Nomenclature for B3N

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 B3N

Atom Name (V3) Atom Name (V2)
O23 O23
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
N20 N20
C22 C22
C21 C21
C18 C18
C19 C19
N12 N12
C10 C10
C9 C9
C8 C8
C7 C7
C6 C6
C5 C5
C1 C1
O2 O2
N3 N3
O4 O4
H15 H15
H16 H16
H221 H221
H222 H222
H223 H223
H211 H211
H212 H212
H213 H213
H18 H18
H19 H19
H12 H12
H101 H101
H102 H102
H91 H91
H92 H92
H81 H81
H82 H82
H71 H71
H72 H72
H61 H61
H62 H62
H51 H51
H52 H52
H24 H24
H25 H25