Zinc in PDB 5k1a: Crystal Structure of the UAF1-USP12 Complex in C2 Space Group

All present enzymatic activity of Crystal Structure of the UAF1-USP12 Complex in C2 Space Group:
3.4.19.12;

The structure of Crystal Structure of the UAF1-USP12 Complex in C2 Space Group, PDB code: 5k1a was solved by H.Li, A.D.D'andrea, N.Zheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.10 / 2.30
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	262.425, 103.301, 178.466, 90.00, 117.47, 90.00
R / Rfree (%)	18.8 / 23.9

The binding sites of Zinc atom in the Crystal Structure of the UAF1-USP12 Complex in C2 Space Group (pdb code 5k1a). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the UAF1-USP12 Complex in C2 Space Group, PDB code: 5k1a:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of the UAF1-USP12 Complex in C2 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the UAF1-USP12 Complex in C2 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:38.7 occ:1.00 SG A:CYS186 2.3 35.2 1.0 SG A:CYS236 2.3 46.5 1.0 SG A:CYS189 2.3 44.7 1.0 SG A:CYS233 2.4 35.1 1.0 CB A:CYS186 3.1 27.2 1.0 CB A:CYS233 3.2 26.4 1.0 CB A:CYS189 3.3 30.0 1.0 CB A:CYS236 3.3 30.6 1.0 N A:CYS189 3.6 27.8 1.0 N A:CYS236 3.8 29.6 1.0 CA A:CYS189 4.1 32.4 1.0 CA A:CYS236 4.2 31.6 1.0 CB A:GLU235 4.3 38.9 1.0 CB A:THR188 4.4 24.9 1.0 CA A:CYS186 4.5 29.2 1.0 CG A:GLN240 4.5 25.0 1.0 C A:THR188 4.6 31.3 1.0 C A:GLU235 4.7 35.2 1.0 CA A:CYS233 4.7 30.8 1.0 O A:HOH574 4.8 37.3 1.0 CA A:THR188 4.9 26.0 1.0 N A:THR188 4.9 28.1 1.0 CA A:GLU235 4.9 35.5 1.0 C A:CYS189 4.9 28.9 1.0 O B:HOH849 5.0 28.8 1.0 C A:CYS186 5.0 28.0 1.0 CG2 A:THR188 5.0 28.5 1.0 CB A:GLN240 5.0 29.5 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of the UAF1-USP12 Complex in C2 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the UAF1-USP12 Complex in C2 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn401 b:30.9 occ:1.00 SG C:CYS189 2.2 42.6 1.0 SG C:CYS233 2.3 32.6 1.0 SG C:CYS236 2.3 37.4 1.0 SG C:CYS186 2.3 33.2 1.0 CB C:CYS233 3.2 30.3 1.0 CB C:CYS189 3.2 30.1 1.0 CB C:CYS186 3.3 33.0 1.0 CB C:CYS236 3.3 31.8 1.0 N C:CYS189 3.7 29.5 1.0 N C:CYS236 3.7 37.9 1.0 CA C:CYS236 4.1 38.7 1.0 CA C:CYS189 4.1 28.9 1.0 CB C:GLU235 4.3 43.1 1.0 CB C:THR188 4.6 27.9 1.0 CG C:GLN240 4.6 26.1 1.0 C C:GLU235 4.6 38.3 1.0 CA C:CYS233 4.7 36.4 1.0 CA C:CYS186 4.7 32.4 1.0 O C:HOH574 4.7 37.9 1.0 O D:HOH931 4.7 34.8 1.0 C C:THR188 4.8 32.2 1.0 CG C:GLU235 4.9 48.7 1.0 CA C:GLU235 4.9 41.1 1.0 C C:CYS189 4.9 28.8 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of the UAF1-USP12 Complex in C2 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the UAF1-USP12 Complex in C2 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn401 b:32.1 occ:1.00 SG E:CYS236 2.2 31.1 1.0 SG E:CYS186 2.3 29.8 1.0 SG E:CYS233 2.3 30.1 1.0 SG E:CYS189 2.4 33.4 1.0 CB E:CYS186 3.1 24.1 1.0 CB E:CYS189 3.2 26.1 1.0 CB E:CYS233 3.3 28.1 1.0 CB E:CYS236 3.3 30.9 1.0 N E:CYS189 3.6 22.0 1.0 N E:CYS236 3.7 32.4 1.0 CA E:CYS189 4.0 27.7 1.0 CA E:CYS236 4.1 32.3 1.0 CB E:GLU235 4.3 34.7 1.0 CB E:THR188 4.6 29.7 1.0 CA E:CYS186 4.6 27.6 1.0 CG E:GLN240 4.6 26.9 1.0 C E:GLU235 4.6 35.2 1.0 C E:THR188 4.7 28.1 1.0 CA E:CYS233 4.7 33.3 1.0 O F:HOH809 4.8 31.2 1.0 CA E:GLU235 4.9 36.2 1.0 C E:CYS189 4.9 29.2 1.0 O E:HOH562 4.9 40.1 1.0 N E:GLU235 4.9 33.9 1.0 N E:GLU190 5.0 27.2 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of the UAF1-USP12 Complex in C2 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the UAF1-USP12 Complex in C2 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn401 b:45.7 occ:1.00 SG G:CYS189 2.2 35.6 1.0 SG G:CYS236 2.3 31.5 1.0 CB G:CYS189 2.3 33.2 1.0 SG G:CYS233 2.4 32.8 1.0 SG G:CYS186 2.4 30.8 1.0 CB G:CYS186 3.2 23.7 1.0 CB G:CYS233 3.4 29.9 1.0 CB G:CYS236 3.5 24.7 1.0 N G:CYS189 3.5 24.5 1.0 CA G:CYS189 3.5 26.4 1.0 N G:CYS236 3.8 30.9 1.0 CA G:CYS236 4.2 32.8 1.0 CB G:GLU235 4.3 39.1 1.0 O H:HOH935 4.5 33.4 1.0 C G:CYS189 4.5 29.4 1.0 C G:THR188 4.6 28.8 1.0 CA G:CYS186 4.6 27.1 1.0 CB G:THR188 4.6 22.6 1.0 C G:GLU235 4.7 36.0 1.0 CG G:GLN240 4.7 24.6 1.0 N G:GLU190 4.8 23.6 1.0 CA G:CYS233 4.9 29.2 1.0 CA G:GLU235 4.9 36.0 1.0 CG G:GLU235 5.0 46.5 1.0

H.Li, K.S.Lim, H.Kim, T.R.Hinds, U.Jo, H.Mao, C.E.Weller, J.Sun, C.Chatterjee, A.D.D'andrea, N.Zheng. Allosteric Activation of Ubiquitin-Specific Proteases By Beta-Propeller Proteins UAF1 and WDR20. Mol.Cell V. 63 249 2016.
ISSN: ISSN 1097-2765
PubMed: 27373336
DOI: 10.1016/J.MOLCEL.2016.05.031