Atom Nomenclature for 88Z

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 88Z

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
N7 N7
C8 C8
C9 C9
C10 C10
O11 O11
C12 C12
O13 O13
O14 O14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
C20 C20
F21 F21
N22 N22
C23 C23
C24 C24
C25 C25
N26 N26
C27 C27
C28 C28
O29 O29
C30 C30
C31 C31
C32 C32
C33 C33
C34 C34
N35 N35
O36 O36
O37 O37
C38 C38
C39 C39
C40 C40
C41 C41
C42 C42
C43 C43
F44 F44
C45 C45
C46 C46
H3 H3
H6 H6
H8 H8
H9 H9
H12 H12
H12A H12A
H12B H12B
H16 H16
H17 H17
H19 H19
HN22 HN22
H23 H23
H23A H23A
H24 H24
H24A H24A
H25 H25
H25A H25A
H27 H27
H27A H27A
H28 H28
H28A H28A
H30 H30
H30A H30A
H31 H31
H31A H31A
HN35 HN35
H39 H39
H40 H40
H42 H42
H43 H43
H45 H45
H45A H45A
H46 H46
H46A H46A