Zinc in PDB 8g46: Cryo-Em Structure of DDB1DELTAB-DDA1-DCAF16-BRD4(BD2)-MMH2

The binding sites of Zinc atom in the Cryo-Em Structure of DDB1DELTAB-DDA1-DCAF16-BRD4(BD2)-MMH2 (pdb code 8g46). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Cryo-Em Structure of DDB1DELTAB-DDA1-DCAF16-BRD4(BD2)-MMH2, PDB code: 8g46:

Zinc binding site 1 out of 1 in the Cryo-Em Structure of DDB1DELTAB-DDA1-DCAF16-BRD4(BD2)-MMH2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of DDB1DELTAB-DDA1-DCAF16-BRD4(BD2)-MMH2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1001 b:53.1 occ:1.00 SG B:CYS103 2.3 59.5 1.0 SG B:CYS100 2.3 55.8 1.0 SG B:CYS177 2.3 54.6 1.0 SG B:CYS179 2.4 56.7 1.0 CB B:CYS100 3.2 56.9 1.0 CB B:CYS179 3.3 60.0 1.0 CB B:CYS177 3.5 65.2 1.0 CB B:CYS103 3.5 54.0 1.0 N B:CYS103 4.0 54.6 1.0 CB B:TYR201 4.2 45.4 1.0 N B:TYR201 4.3 46.2 1.0 CA B:CYS103 4.4 49.5 1.0 N B:CYS179 4.4 49.3 1.0 CA B:CYS177 4.4 61.4 1.0 CA B:CYS179 4.4 52.1 1.0 CB B:HIS102 4.5 63.8 1.0 ND1 B:HIS102 4.6 90.9 1.0 CA B:CYS100 4.6 53.6 1.0 CA B:TYR201 4.7 44.6 1.0 C B:HIS102 4.8 53.9 1.0 C B:CYS177 4.8 62.8 1.0 O B:CYS100 5.0 43.8 1.0 C B:CYS100 5.0 46.7 1.0

Y.D.Li, M.W.Ma, M.M.Hassan, M.Hunkeler, M.Teng, K.Puvar, R.Lumpkin, B.Sandoval, C.Y.Jin, S.B.Ficarro, M.Y.Wang, S.Xu, B.J.Groendyke, L.H.Sigua, I.Tavares, C.Zou, J.M.Tsai, P.M.C.Park, H.Yoon, F.C.Majewski, J.A.Marto, J.Qi, R.P.Nowak, K.A.Donovan, M.Slabicki, N.S.Gray, E.S.Fischer, B.L.Ebert. Template-Assisted Covalent Modification of DCAF16 Underlies Activity of BRD4 Molecular Glue Degraders. Biorxiv 2023.
ISSN: ISSN 2692-8205
PubMed: 36824856
DOI: 10.1101/2023.02.14.528208