Atom Nomenclature for TS8

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 TS8

Atom Name (V3) Atom Name (V2)
S S
C1 C1
C2 C2
O2 O2
C3 C3
O3 O3
C4 C4
O4 O4
C5 C5
O5 O5
C6 C6
O6 O6
CAD CAD
CAE CAE
CAF CAF
CAG CAG
OAH OAH
OAI OAI
OAJ OAJ
OAK OAK
CAW CAW
CAX CAX
CAY CAY
CAZ CAZ
HS HS
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H61 H6
H62 H6A
HAD HAD
HADA HADA
HADB HADB
HAE HAE
HAEA HAEA
HAEB HAEB
HAF HAF
HAFA HAFA
HAFB HAFB
HAZ HAZ
HAZA HAZA
HAZB HAZB