Atom Nomenclature for MGQ

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 MGQ

Atom Name (V3) Atom Name (V2)
CAK CAK
CAI CAI
CAH CAH
CAJ CAJ
CAL CAL
CAU CAU
CAO CAO
N7 N7
C8 C8
C5 C5
C6 C6
O6 O6
N1 N1
C2 C2
N2 N2
N3 N3
C4 C4
N9 N9
C1' C1'
O4' O4'
C2' C2'
O2' O2'
C3' C3'
O3' O3'
C4' C4'
C5' C5'
O5' O5'
PBE PBE
OP2 OP2
OP3 OP3
OP1 OP1
HAK HAK
HAI HAI
HAH HAH
HAJ HAJ
HAL HAL
HAO1 HAO1
HAO2 HAO2
H8 H8
H1 H1
H2N1 H2N1
H2N2 H2N2
H1' H1'
H2' H2
H4' H4
HA HA
H3' H3
HO3' HO3'
H5'1 H51
H5'2 H52
HOP2 HOP2
HOP3 HOP3