Atom Nomenclature for ZU5

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 ZU5

Atom Name (V3) Atom Name (V2)
C72 C72
O74 O74
O76 O76
C78 C78
C80 C80
C82 C82
C83 C83
C84 C84
C85 C85
C86 C86
N70 N70
C54 C54
C50 C50
O52 O52
C56 C56
O60 O60
C58 C58
C62 C62
C64 C64
C66 C66
C68 C68
N48 N48
C38 C38
C34 C34
O36 O36
C40 C40
C42 C42
C44 C44
C46 C46
C1 C1
C2 C2
C4 C4
C7 C7
C9 C9
C11 C11
C13 C13
C15 C15
C17 C17
C19 C19
C21 C21
N23 N23
C25 C25
O28 O28
O30 O30
N32 N32
H78 H78
H78A H78A
H82 H82
H83 H83
H84 H84
H85 H85
H86 H86
HN70 HN70
H54 H54
H56 H56
H58 H58
H58A H58A
H58B H58B
H64 H64
H64A H64A
H64B H64B
H66 H66
H66A H66A
H66B H66B
H68 H68
H68A H68A
H68B H68B
HN48 HN48
H38 H38
H40 H40
H40A H40A
H42 H42
H44 H44
H44A H44A
H44B H44B
H46 H46
H46A H46A
H46B H46B
H1 H1
H2 H2
H2A H2A
H4 H4
H4A H4A
H9 H9
H11 H11
H13 H13
H15 H15
H15A H15A
H17 H17
H19 H19
H19A H19A
H21 H21
H21A H21A
HN23 HN23
HN32 HN32
H9A H9A
H11A H11A