Atom Nomenclature for 024

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 024

Atom Name (V3) Atom Name (V2)
S1 S1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
O7 O7
O8 O8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
BR19 BR19
O20 O20
C21 C21
C22 C22
O25 O25
O26 O26
N27 N27
C28 C28
C30 C30
C31 C31
C32 C32
C33 C33
C34 C34
HO8 HO8
H10 H10
H12 H12
H13 H13
H14 H14
H211 1H21
H212 2H21
HO25 HO25
HN27 HN27
H28 H28
H301 1H30
H302 2H30
H311 1H31
H312 2H31
H321 1H32
H322 2H32
H331 1H33
H332 2H33
H341 1H34
H342 2H34