Zinc in PDB 6dgf: Ubiquitin Variant Bound to USP2

All present enzymatic activity of Ubiquitin Variant Bound to USP2:
3.4.19.12;

The structure of Ubiquitin Variant Bound to USP2, PDB code: 6dgf was solved by N.Manczyk, F.Sicheri, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.07 / 2.34
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	159.978, 58.093, 46.842, 90.00, 98.12, 90.00
R / Rfree (%)	17.6 / 22.4

The binding sites of Zinc atom in the Ubiquitin Variant Bound to USP2 (pdb code 6dgf). 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 Ubiquitin Variant Bound to USP2, PDB code: 6dgf:

Zinc binding site 1 out of 1 in the Ubiquitin Variant Bound to USP2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ubiquitin Variant Bound to USP2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn701 b:35.5 occ:1.00 SG A:CYS428 2.3 23.4 1.0 SG A:CYS479 2.4 30.5 1.0 SG A:CYS476 2.4 30.2 1.0 SG A:CYS425 2.4 23.7 1.0 CB A:CYS428 3.2 25.8 1.0 CB A:CYS425 3.2 20.8 1.0 CB A:CYS479 3.4 30.2 1.0 CB A:CYS476 3.5 29.7 1.0 N A:CYS428 3.6 27.1 1.0 N A:CYS479 3.8 34.5 1.0 CA A:CYS428 4.0 29.4 1.0 CA A:CYS479 4.2 31.4 1.0 CB A:ARG478 4.4 33.8 1.0 CB A:ASP427 4.5 31.6 1.0 CG A:LYS483 4.5 39.9 1.0 CD A:LYS483 4.5 45.2 1.0 CA A:CYS425 4.7 25.2 1.0 C A:ASP427 4.7 28.1 1.0 C A:ARG478 4.8 36.6 1.0 C A:CYS428 4.8 25.7 1.0 CA A:CYS476 4.9 28.4 1.0 N A:GLY429 4.9 24.5 1.0 CA A:ASP427 5.0 26.6 1.0 N A:ASP427 5.0 24.4 1.0

N.Pascoe, A.Seetharaman, J.Teyra, N.Manczyk, M.A.Satori, D.Tjandra, T.Makhnevych, C.Schwerdtfeger, B.B.Brasher, J.Moffat, M.Costanzo, C.Boone, F.Sicheri, S.S.Sidhu. Yeast Two-Hybrid Analysis For Ubiquitin Variant Inhibitors of Human Deubiquitinases. J. Mol. Biol. V. 431 1160 2019.
ISSN: ESSN 1089-8638
PubMed: 30763569
DOI: 10.1016/J.JMB.2019.02.007