Atom Nomenclature for 8SP

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 8SP

Atom Name (V3) Atom Name (V2)
N N
P P
OG OG
C1A C1A
O1A O1A
C1B C1B
O1B O1B
CB CB
C1G C1G
O1G O1G
C2A C2A
C2B C2B
CA CA
C2G C2G
O2G O2G
O2P O2P
C3A C3A
C3B C3B
C C
O O
OXT OXT
C3G C3G
O3G O3G
O3P O3P
C4A C4A
C4B C4B
C5A C5A
C5B C5B
C6A C6A
C6B C6B
C7A C7A
C7B C7B
C8A C8A
C8B C8B
HB3 HB3
HB2 HB2
H11G H11G
H21G H21G
H H
H12A H12A
H22A H22A
H12B H12B
H22B H22B
HA HA
H2G H2G
H2 H2
H13A H13A
H23A H23A
H13B H13B
H23B H23B
H13G H13G
H23G H23G
H14A H14A
H24A H24A
H14B H14B
H24B H24B
H15A H15A
H25A H25A
H15B H15B
H25B H25B
H16A H16A
H26A H26A
H16B H16B
H26B H26B
H17A H17A
H27A H27A
H17B H17B
H27B H27B
H18A H18A
H28A H28A
H38A H38A
H18B H18B
H28B H28B
H38B H38B
HXT HXT
H42 H42