Atom Nomenclature for S42

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 S42

Atom Name (V3) Atom Name (V2)
N01 N01
C02 C02
N02 N02
C03 C03
C04 C04
C05 C05
C06 C06
C07 C07
C08 C08
C09 C09
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
N21 N21
C22 C22
N22 N22
C23 C23
C24 C24
C25 C25
C26 C26
C27 C27
C28 C28
C29 C29
C30 C30
N31 N31
HN02 HN02
HN0A HN0A
H03 H03
H05 H05
H07 H07
H07A H07A
H07B H07B
H08 H08
H08A H08A
H09 H09
H09A H09A
H12 H12
H13 H13
H14 H14
H16 H16
HN22 HN22
HN2A HN2A
H23 H23
H25 H25
H27 H27
H27A H27A
H27B H27B
H28 H28
H28A H28A
H29 H29
H30 H30
H30A H30A
HN31 HN31
HN3A HN3A