Zinc in PDB 6q0r: Structure of DDB1-DDA1-DCAF15 Complex Bound to E7820 and RBM39

The structure of Structure of DDB1-DDA1-DCAF15 Complex Bound to E7820 and RBM39, PDB code: 6q0r was solved by T.Faust, H.Yoon, R.P.Nowak, K.A.Donovan, Z.Li, Q.Cai, N.A.Eleuteri, T.Zhang, N.S.Gray, E.S.Fischer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.05 / 2.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	81.108, 93.600, 258.439, 90.00, 90.00, 90.00
R / Rfree (%)	20.5 / 25.1

The binding sites of Zinc atom in the Structure of DDB1-DDA1-DCAF15 Complex Bound to E7820 and RBM39 (pdb code 6q0r). 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 Structure of DDB1-DDA1-DCAF15 Complex Bound to E7820 and RBM39, PDB code: 6q0r:

Zinc binding site 1 out of 1 in the Structure of DDB1-DDA1-DCAF15 Complex Bound to E7820 and RBM39


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of DDB1-DDA1-DCAF15 Complex Bound to E7820 and RBM39 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn303 b:0.7 occ:1.00 SG B:CYS211 2.2 1.0 1.0 SG B:CYS196 2.2 0.1 1.0 SG B:CYS193 2.3 0.7 1.0 ND1 B:HIS214 2.6 0.3 1.0 CG B:HIS214 3.4 0.1 1.0 CB B:HIS214 3.4 0.9 1.0 CB B:CYS196 3.4 0.6 1.0 CB B:CYS193 3.4 0.2 1.0 CB B:CYS211 3.6 0.8 1.0 N B:CYS196 3.7 0.9 1.0 CE1 B:HIS214 3.7 0.5 1.0 CA B:CYS196 3.9 0.7 1.0 N B:HIS214 4.3 0.1 1.0 N B:CYS211 4.3 0.3 1.0 CB B:ALA195 4.4 0.4 1.0 CA B:HIS214 4.4 0.3 1.0 C B:ALA195 4.4 0.6 1.0 CA B:CYS211 4.4 0.3 1.0 CD2 B:HIS214 4.6 0.0 1.0 NE2 B:HIS214 4.8 0.1 1.0 CA B:CYS193 4.8 0.8 1.0 CA B:ALA195 4.8 0.6 1.0 CB B:PRO189 4.9 0.2 1.0 OE1 B:GLN210 4.9 0.2 1.0 O B:CYS211 4.9 0.8 1.0 C B:CYS211 4.9 0.7 1.0 N B:ALA195 5.0 0.8 1.0

T.B.Faust, H.Yoon, R.P.Nowak, K.A.Donovan, Z.Li, Q.Cai, N.A.Eleuteri, T.Zhang, N.S.Gray, E.S.Fischer. Structural Complementarity Facilitates E7820-Mediated Degradation of RBM39 By DCAF15. Nat.Chem.Biol. 2019.
ISSN: ESSN 1552-4469
PubMed: 31686031
DOI: 10.1038/S41589-019-0378-3