Fluorine in PDB 8d7z: Cereblon-DDB1 Bound to Cc-92480 and Ikaros ZF1-2-3

The structure of Cereblon-DDB1 Bound to Cc-92480 and Ikaros ZF1-2-3 also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Fluorine atom in the Cereblon-DDB1 Bound to Cc-92480 and Ikaros ZF1-2-3 (pdb code 8d7z). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the Cereblon-DDB1 Bound to Cc-92480 and Ikaros ZF1-2-3, PDB code: 8d7z:

Fluorine binding site 1 out of 1 in the Cereblon-DDB1 Bound to Cc-92480 and Ikaros ZF1-2-3


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cereblon-DDB1 Bound to Cc-92480 and Ikaros ZF1-2-3 within 5.0Å range: probe atom residue distance (Å) B Occ B:F502 b:161.9 occ:1.00 F B:QFC502 0.0 161.9 1.0 C B:QFC502 1.3 161.9 1.0 C1 B:QFC502 2.3 161.9 1.0 C5 B:QFC502 2.3 161.9 1.0 N B:QFC502 2.7 161.9 1.0 C6 B:QFC502 3.2 161.9 1.0 CE1 B:HIS353 3.4 157.3 1.0 ND1 B:HIS353 3.5 157.3 1.0 C2 B:QFC502 3.6 161.9 1.0 C4 B:QFC502 3.6 161.9 1.0 C30 B:QFC502 4.0 161.9 1.0 C3 B:QFC502 4.1 161.9 1.0 CZ B:PHE102 4.3 172.2 1.0 NE2 B:HIS353 4.3 157.3 1.0 C7 B:QFC502 4.6 161.9 1.0 CE2 B:PHE102 4.6 172.2 1.0 CG B:HIS353 4.6 157.3 1.0 C29 B:QFC502 4.7 161.9 1.0 N1 B:QFC502 4.7 161.9 1.0 C31 B:QFC502 4.8 161.9 1.0 O B:PRO352 4.9 163.5 1.0 CE1 B:PHE102 4.9 172.2 1.0

E.R.Watson, S.J.Novick, M.E.Matyskiela, P.P.Chamberlain, A.H.De La Pena, J.Y.Zhu, E.Tran, P.R.Griffin, I.E.Wertz, G.C.Lander. Molecular Glue Celmod Compounds Are Allosteric Regulators of Cereblon Conformation Biorxiv 2022.
DOI: 10.1101/2022.07.02.498551