Atom Nomenclature for 730

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 730

Atom Name (V3) Atom Name (V2)
S1 S1
O39 O39
O38 O38
N12 N12
C13 C13
C24 C24
N26 N26
C31 C31
C30 C30
C29 C29
C32 C32
C33 C33
N34 N34
C35 C35
N37 N37
N36 N36
C28 C28
C27 C27
O25 O25
C14 C14
C15 C15
C20 C20
C19 C19
C21 C21
N23 N23
N22 N22
C18 C18
C17 C17
C16 C16
C2 C2
C7 C7
C6 C6
C5 C5
C11 C11
C10 C10
C9 C9
C8 C8
C4 C4
C3 C3
HN12 HN12
H13 H13
H311 1H31
H312 2H31
H301 1H30
H302 2H30
H29 H29
H321 1H32
H322 2H32
H331 1H33
H332 2H33
HN34 HN34
HN37 HN37
H361 1H36
H362 2H36
H281 1H28
H282 2H28
H271 1H27
H272 2H27
H141 1H14
H142 2H14
H20 H20
HN23 HN23
H221 1H22
H222 2H22
H18 H18
H17 H17
H16 H16
H7 H7
H6 H6
H11 H11
H10 H10
H9 H9
H8 H8
H3 H3