Atom Nomenclature for WXV

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 WXV

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
N6 N6
N7 N7
C8 C8
C9 C9
O10 O10
C11 C11
C12 C12
N13 N13
C14 C14
N15 N15
C16 C16
N17 N17
N18 N18
C19 C19
C20 C20
C21 C21
N22 N22
C23 C23
C24 C24
S25 S25
C26 C26
O27 O27
O28 O28
C29 C29
H1 H1
H2 H2
H81C H81C
H82C H82C
H83C H83C
H18 H18
H16 H16
H17 H17
H19 H19
H291 H291
H292 H292
H293 H293
H201 H201
H202 H202
H241 H241
H242 H242
H211 H211
H212 H212
H231 H231
H232 H232
H261 H261
H262 H262
H263 H263