Atom Nomenclature for FNR

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 FNR

Atom Name (V3) Atom Name (V2)
C9A C9A
N10 N10
CAA C10A
N1 N1
C2 C2
O2 O2
N3 N3
C4 C4
O4 O4
C4A C4A
N5 N5
C5A C5A
C6 C6
C7 C7
C7M C7M
C8 C8
C8M C8M
C9 C9
C1' C1'
C2' C2'
O2' O2'
C3' C3'
O3' O3'
C4' C4'
O4' O4'
C5' C5'
O5' O5'
P P
O1P O1P
O2P O2P
O3P O3P
HN1 HN1
H3 H3
H5 H5
H7 H7
H7M1 H7M1
H7M2 H7M2
H7M3 H7M3
H8M1 H8M1
H8M2 H8M2
H8M3 H8M3
H9 H9
H1'1 H1'1
H1'2 H1'2
H6 H6
H2' H2'
H4 H4
H3' H3'
H2 H2
H4' H4'
H5'1 H5'1
H5'2 H5'2
H1 H1
H3P H3P