Atom Nomenclature for Y2F

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 Y2F

Atom Name (V3) Atom Name (V2)
N01 N01
C02 C02
N02 N02
C03 C03
C04 C04
C05 C05
C06 C06
C07 C07
C08 C08
O09 O09
N1' N1'
C10 C10
C11 C11
N12 N12
C13 C13
C14 C14
C15 C15
C2' C2'
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
F25 F25
C26 C26
C3' C3'
C4' C4'
C5' C5'
HN02 HN02
HN0A HN0A
H03 H03
H05 H05
H07 H07
H07A H07A
H07B H07B
H08 H08
H08A H08A
HN1' HN1'
H10 H10
H10A H10A
H11 H11
H11A H11A
HN12 HN12
H13 H13
H14 H14
H14A H14A
H14B H14B
H15 H15
H15A H15A
H2' H2'
H2'A H2'A
H22 H22
H23 H23
H24 H24
H26 H26
H3' H3'
H4' H4'
H5' H5'
H5'A H5'A