Zinc in PDB 7r2g: USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2)

All present enzymatic activity of USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2):
3.4.19.12;

The structure of USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2), PDB code: 7r2g was solved by A.Priyanka, T.K.Sixma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.89 / 1.98
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	63.882, 97.399, 62.995, 90, 90.01, 90
R / Rfree (%)	20.4 / 23.8

The binding sites of Zinc atom in the USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2) (pdb code 7r2g). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2), PDB code: 7r2g:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:102.0 occ:1.00 SG A:CYS419 2.3 103.2 1.0 SG A:CYS783 2.3 109.0 1.0 SG A:CYS780 2.3 102.1 1.0 SG A:CYS422 2.4 120.1 1.0 O A:GLU421 2.5 109.8 1.0 CB A:CYS419 3.1 101.3 1.0 CB A:CYS780 3.3 96.5 1.0 CB A:CYS783 3.3 108.2 1.0 CB A:CYS422 3.5 120.1 1.0 C A:GLU421 3.7 119.3 1.0 N A:CYS783 3.9 106.6 1.0 CA A:CYS783 4.1 108.2 1.0 CB A:LYS424 4.2 95.7 1.0 CA A:CYS422 4.5 121.3 1.0 N A:CYS422 4.5 120.0 1.0 CB A:ASN782 4.6 100.9 1.0 CA A:CYS419 4.6 98.7 1.0 CA A:CYS780 4.7 94.8 1.0 CA A:GLU421 4.7 122.1 1.0 CB A:GLU421 4.7 125.6 1.0 CG A:GLN787 4.8 107.3 1.0 C A:ASN782 4.9 105.9 1.0 N A:GLU421 4.9 121.6 1.0 N A:LYS424 5.0 100.5 1.0

Zinc binding site 2 out of 2 in the USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of USP15 D1D2 in Catalytically-Competent State Bound to Mitoxantrone Stack (Isoform 2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1001 b:71.9 occ:0.33 SG B:CYS783 2.3 88.3 1.0 SG B:CYS419 2.3 83.4 1.0 SG B:CYS422 2.3 86.3 1.0 SG B:CYS780 2.3 81.9 1.0 CB B:CYS419 3.2 79.8 1.0 CB B:CYS780 3.3 78.0 1.0 CB B:CYS783 3.4 87.9 1.0 CB B:CYS422 3.4 90.6 1.0 N B:CYS422 3.7 93.5 1.0 N B:CYS783 3.8 87.0 1.0 CB B:LYS424 4.1 84.5 1.0 CA B:CYS422 4.1 93.6 1.0 CA B:CYS783 4.1 89.4 1.0 CB B:ASN782 4.4 85.7 1.0 CB B:GLU421 4.6 99.2 1.0 CA B:CYS419 4.6 81.2 1.0 CA B:CYS780 4.6 78.0 1.0 C B:ASN782 4.8 85.8 1.0 C B:CYS422 4.8 90.0 1.0 C B:GLU421 4.9 96.8 1.0 N B:LYS424 4.9 85.7 1.0 CG B:GLN787 4.9 94.0 1.0 CG B:LYS424 4.9 85.6 1.0

A.Priyanka, D.Tisi, T.K.Sixma. Mitoxantrone Stacking Does Not Define the Active or Inactive State of USP15 Catalytic Domain. J.Struct.Biol. V. 214 07862 2022.
ISSN: ESSN 1095-8657
PubMed: 35605756
DOI: 10.1016/J.JSB.2022.107862