Atom Nomenclature for MTE

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 MTE

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
N2 N2
N3 N3
C4 C4
O4 O4
N5 N5
C6 C6
C7 C7
N8 N8
C9 C9
C10 C10
C1' C1'
S1' S1'
C2' C2'
S2' S2'
C3' C3'
O3' O3'
C4' C4'
O4' O4'
P P
O1P O1P
O2P O2P
O3P O3P
HN21 1HN2
HN22 2HN2
HN3 HN3
HN5 HN5
H6 H6
H7 H7
HN8 HN8
H1S H1S
H2S H2S
H3' H3'
H4'1 1H4'
H4'2 2H4'
HOP2 2HOP
HOP3 3HOP