Atom Nomenclature for C80

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 C80

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
N8 N8
C16 C16
C9 C9
C13 C13
C14 C14
C15 C15
C10 C10
C11 C11
C12 C12
C17 C17
O18 O18
O19 O19
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
N25 N25
C26 C26
O27 O27
C28 C28
C29 C29
C30 C30
C31 C31
O32 O32
N33 N33
C34 C34
C35 C35
C36 C36
C37 C37
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H7C1 1H7C
H7C2 2H7C
H16 H16
H10 H10
H13 H13
H12 H12
H11 H11
H201 1H20
H202 2H20
H21 H21
H221 1H22
H222 2H22
H223 3H22
H231 1H23
H232 2H23
H24 H24
H251 1H25
H252 2H25
H27 H27
H281 1H28
H282 2H28
H29 H29
H301 1H30
H302 2H30
H303 3H30
H33 H33
H341 1H34
H342 2H34
H351 1H35
H352 2H35
H361 1H36
H362 2H36
H371 1H37
H372 2H37
H373 3H37
H26 H26