Zinc in PDB 6dxh: Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate

Enzymatic activity of Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate

All present enzymatic activity of Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate:
3.4.19.12;

Protein crystallography data

The structure of Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate, PDB code: 6dxh was solved by R.J.Harding, M.K.Mann, M.Ravichandran, R.Ferreira De Freitas, I.Franzoni, C.Bountra, A.M.Edwards, C.H.Arrowsmith, M.Schapira, Structural Genomicsconsortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.56 / 2.00
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 47.690, 81.500, 99.660, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 25.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate (pdb code 6dxh). 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 USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate, PDB code: 6dxh:

Zinc binding site 1 out of 1 in 6dxh

Go back to Zinc Binding Sites List in 6dxh
Zinc binding site 1 out of 1 in the Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn308

b:31.8
occ:1.00
 ND1 A:HIS232 2.1 27.0 1.0
SG A:CYS219 2.3 28.9 1.0
SG A:CYS199 2.3 28.6 1.0
SG A:CYS202 2.4 32.2 1.0
CE1 A:HIS232 3.0 30.8 1.0
CG A:HIS232 3.1 29.3 1.0
CB A:CYS199 3.2 27.8 1.0
CB A:CYS219 3.3 29.5 1.0
CB A:CYS202 3.5 29.2 1.0
CB A:HIS232 3.5 28.6 1.0
N A:CYS202 3.8 33.0 1.0
N A:CYS219 3.9 24.4 1.0
CB A:ASN230 4.2 34.6 1.0
CA A:CYS202 4.2 33.1 1.0
NE2 A:HIS232 4.2 30.5 1.0
CA A:CYS219 4.2 24.7 1.0
CD2 A:HIS232 4.3 31.6 1.0
CB A:LYS201 4.4 35.9 1.0
C A:LYS201 4.4 36.2 1.0
CG A:MET204 4.6 39.0 1.0
CB A:MET204 4.6 38.7 1.0
CA A:CYS199 4.6 28.1 1.0
ND2 A:ASN230 4.7 31.5 1.0
C A:CYS202 4.7 37.4 1.0
CA A:HIS232 4.8 25.6 1.0
N A:HIS232 4.8 23.6 1.0
N A:LYS201 4.8 31.7 1.0
CA A:LYS201 4.8 34.2 1.0
N A:ASN230 4.9 34.0 1.0
CA A:ASN230 5.0 33.3 1.0
CG A:ASN230 5.0 36.6 1.0

Reference:

R.J.Harding, M.K.Mann, M.Ravichandran, R.Ferreira De Freitas, I.Franzoni, C.Bountra, A.M.Edwards, C.H.Arrowsmith, M.Schapira, Structural Genomics Consortium (Sgc). Structure of USP5 Zinc-Finger Ubiquitin Binding Domain Co-Crystallized with 4-(4-Tert-Butylphenyl)-4-Oxobutanoate To Be Published.
Page generated: Wed Dec 16 11:41:27 2020

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