Atom Nomenclature for 0BI

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 0BI

Atom Name (V3) Atom Name (V2)
N1 N1
C3 C3
C5 C5
C8 C8
C9 C9
C11 C11
C12 C12
C14 C14
C16 C16
O18 O18
C19 C19
C22 C22
C25 C25
C28 C28
N31 N31
C33 C33
C34 C34
C36 C36
C37 C37
C39 C39
C40 C40
C42 C42
O45 O45
C46 C46
C50 C50
O51 O51
C52 C52
O54 O54
C56 C56
N59 N59
C61 C61
C62 C62
C65 C65
C68 C68
C69 C69
C71 C71
C72 C72
C74 C74
C76 C76
C78 C78
C80 C80
C84 C84
HN1 HN1
H3 H3
H5 H5
H5A H5A
H9 H9
H12 H12
H14 H14
H16 H16
H19 H19
H19A H19A
H22 H22
H22A H22A
H25 H25
H25A H25A
H28 H28
H28A H28A
HN31 HN31
H34 H34
H37 H37
H40 H40
H42 H42
H42A H42A
H46 H46
H46A H46A
H46B H46B
H52 H52
HO54 HO54
H56 H56
H56A H56A
HN59 HN59
H62 H62
H62A H62A
H65 H65
H65A H65A
H69 H69
H72 H72
H74 H74
H76 H76
H78 H78
H80 H80
H80A H80A
H80B H80B
H84 H84
H84A H84A
H84B H84B