Atom Nomenclature for 6IA

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 6IA

Atom Name (V3) Atom Name (V2)
OP3 O3P
P P
OP1 O1P
OP2 O2P
O5' O5'
C5' C5'
C4' C4'
O4' O4'
C3' C3'
O3' O3'
C2' C2'
O2' O2'
C1' C1'
N9 N9
C8 C8
N7 N7
C5 C5
C6 C6
N6 N6
N1 N1
C2 C2
N3 N3
C4 C4
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
HOP3 HOP3
HOP2 HOP2
H5' H5'1
H5'' H5'2
H4' H4'
H3' H3'
HO3' H3T
H2' H2'
HO2' HO'2
H1' H1'
H8 H8
HN6 HN6
H2 H2
H121 H121
H122 H122
H131 H131
H132 H132
H14 H14
H151 H151
H152 H152
H153 H153
H161 H161
H162 H162
H163 H163