Atom Nomenclature for H52

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 H52

Atom Name (V3) Atom Name (V2)
O1 O1
S5 S5
O2 O2
N21 N21
C22 C22
C2M C2M
C23 C23
N24 N24
C25 C25
C26 C26
C27 C27
C5 C5
C10 C10
C4 C4
CM CM
C9 C9
C8 C8
C7 C7
C6 C6
C1 C1
N2 N2
C3 C3
H22 H22
H2M1 1H2M
H2M2 2H2M
H2M3 3H2M
H231 1H23
H232 2H23
H24 H24
H251 1H25
H252 2H25
H261 1H26
H262 2H26
H271 1H27
H272 2H27
HM1 1HM
HM2 2HM
HM3 3HM
H8 H8
H7 H7
H6 H6
H1 H1
H3 H3