Atom Nomenclature for 24M

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 24M

Atom Name (V3) Atom Name (V2)
N N1
CA C3
C5 C5
O7 O7
C9 C9
C11 C11
C13 C13
C16 C16
C19 C19
C C22
O O23
C36 C36
C39 C39
C41 C41
C45 C45
H HN1
HA H3
H5 H5
HO7 HO7
H9 H9
H11 H11
H131 H131
H132 H132
H161 H161
H162 H162
H191 H191
H192 H192
H361 H361
H362 H362
H39 H39
H411 H411
H412 H412
H413 H413
H451 H451
H452 H452
H453 H453
H2 H2
OXT OXT
HXT HXT