Zinc in PDB 6fyh: Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1

All present enzymatic activity of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1:
2.3.2.26;

The structure of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1, PDB code: 6fyh was solved by M.Jaeckl, M.D.Hartmann, S.Wiesner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.14 / 2.91
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	82.234, 82.234, 85.852, 90.00, 90.00, 90.00
R / Rfree (%)	23 / 26.6

The binding sites of Zinc atom in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 (pdb code 6fyh). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1, PDB code: 6fyh:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:0.8 occ:1.00 NE2 A:HIS369 2.4 85.4 1.0 O A:HOH503 2.7 58.5 1.0 CE1 A:HIS369 3.0 66.8 1.0 OE2 A:GLU365 3.6 78.8 1.0 CD2 A:HIS369 3.7 55.3 1.0 ND1 A:HIS369 4.3 66.9 1.0 CG A:GLU365 4.4 57.1 1.0 CD A:GLU365 4.5 66.7 1.0 CG A:HIS369 4.6 63.2 1.0

Zinc binding site 2 out of 6 in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:0.9 occ:1.00 ZN A:ZN406 1.2 68.0 1.0 OE1 A:GLU365 2.5 65.9 1.0 OE2 A:GLU365 3.0 78.8 1.0 CD A:GLU365 3.1 66.7 1.0 CG A:GLU365 4.6 57.1 1.0

Zinc binding site 3 out of 6 in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn404 b:58.1 occ:1.00 NE2 A:HIS350 2.0 61.1 1.0 O4 A:SO4405 2.0 54.4 1.0 OD2 A:ASP357 2.1 53.6 1.0 O A:HOH502 2.4 43.5 1.0 CG A:ASP357 2.9 48.4 1.0 CE1 A:HIS350 2.9 54.9 1.0 CD2 A:HIS350 3.1 63.5 1.0 OD1 A:ASP357 3.2 47.5 1.0 S A:SO4405 3.3 73.8 1.0 O1 A:SO4405 3.7 53.9 1.0 O2 A:SO4405 4.0 59.5 1.0 ND1 A:HIS350 4.1 51.2 1.0 CG A:HIS350 4.2 42.8 1.0 NE2 A:GLN355 4.2 35.2 1.0 CB A:ASP357 4.3 37.1 1.0 O3 A:SO4405 4.4 82.3 1.0 NH1 A:ARG341 4.6 54.4 1.0 O A:HOH505 4.7 23.2 1.0 OG A:SER348 4.7 54.7 1.0

Zinc binding site 4 out of 6 in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn406 b:68.0 occ:1.00 ZN A:ZN403 1.2 0.9 1.0 OE1 A:GLU365 2.1 65.9 1.0 CD A:GLU365 2.8 66.7 1.0 OE2 A:GLU365 2.8 78.8 1.0 CG A:GLU365 4.2 57.1 1.0 CB A:GLU365 4.8 39.8 1.0

Zinc binding site 5 out of 6 in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn101 b:65.3 occ:1.00 O3 A:SO4405 3.7 82.3 1.0 O B:ASP39 4.0 61.7 1.0 O2 A:SO4405 4.1 59.5 1.0 CD B:ARG72 4.4 77.0 1.0 S A:SO4405 4.6 73.8 1.0 OD1 B:ASP39 4.7 65.6 1.0 O B:ARG72 4.9 59.7 1.0 CG B:ARG72 4.9 54.2 1.0 C B:ASP39 5.0 54.5 1.0

Zinc binding site 6 out of 6 in the Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Disulfide Between Ubiquitin G76C and the E3 Hect Ligase HUWE1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn102 b:0.3 occ:1.00 OD1 B:ASP32 2.6 83.2 1.0 CG B:ASP32 3.3 74.3 1.0 OD2 B:ASP32 3.3 93.6 1.0 OE1 B:GLN31 4.1 67.5 1.0 O B:ALA28 4.2 63.6 1.0 CB B:ASP32 4.7 56.8 1.0 CD B:GLN31 4.8 54.6 1.0 C B:ALA28 5.0 65.9 1.0 CB B:ALA28 5.0 43.8 1.0

M.Jackl, C.Stollmaier, T.Strohaker, K.Hyz, E.Maspero, S.Polo, S.Wiesner. Beta-Sheet Augmentation Is A Conserved Mechanism of Priming Hect E3 Ligases For Ubiquitin Ligation. J. Mol. Biol. V. 430 3218 2018.
ISSN: ESSN 1089-8638
PubMed: 29964046
DOI: 10.1016/J.JMB.2018.06.044