Zinc in PDB 8yjb: Cryo-Em Structure of the Human DSS1-Intac Complex

All present enzymatic activity of Cryo-Em Structure of the Human DSS1-Intac Complex:
3.1.3.16;

The structure of Cryo-Em Structure of the Human DSS1-Intac Complex also contains other interesting chemical elements:

Manganese

(Mn)

2 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of the Human DSS1-Intac Complex (pdb code 8yjb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of the Human DSS1-Intac Complex, PDB code: 8yjb:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of the Human DSS1-Intac Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the Human DSS1-Intac Complex within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn701 b:116.6 occ:1.00 OD2 K:ASP178 2.0 114.8 1.0 NE2 K:HIS73 2.3 111.8 1.0 NE2 K:HIS414 2.3 112.5 1.0 ZN K:ZN702 2.3 133.3 1.0 CE1 K:HIS414 2.6 112.5 1.0 OD2 K:ASP72 2.8 117.1 1.0 CG K:ASP178 2.9 114.8 1.0 CD2 K:HIS73 3.0 111.8 1.0 OD1 K:ASP178 3.3 114.8 1.0 OH K:TYR353 3.4 132.8 1.0 CE1 K:HIS73 3.4 111.8 1.0 CD2 K:HIS414 3.5 112.5 1.0 CG K:ASP72 3.7 117.1 1.0 ND1 K:HIS414 3.8 112.5 1.0 OD1 K:ASP72 3.9 117.1 1.0 ND1 K:HIS70 3.9 110.4 1.0 NE2 K:HIS392 3.9 113.2 1.0 NE2 K:HIS68 4.1 105.2 1.0 CB K:ASP178 4.2 114.8 1.0 CG K:HIS73 4.2 111.8 1.0 CZ K:TYR353 4.3 132.8 1.0 CG K:HIS414 4.3 112.5 1.0 ND1 K:HIS73 4.4 111.8 1.0 CE1 K:HIS68 4.4 105.2 1.0 NE2 K:HIS157 4.5 106.4 1.0 CD2 K:HIS392 4.7 113.2 1.0 CE1 K:TYR353 4.8 132.8 1.0 CE1 K:HIS70 4.8 110.4 1.0 CG K:HIS70 4.8 110.4 1.0 CB K:HIS70 4.9 110.4 1.0 CE1 K:HIS392 4.9 113.2 1.0 CE1 K:HIS157 4.9 106.4 1.0 CB K:ASP72 5.0 117.1 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of the Human DSS1-Intac Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the Human DSS1-Intac Complex within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn702 b:133.3 occ:1.00 OD2 K:ASP178 2.1 114.8 1.0 ND1 K:HIS70 2.3 110.4 1.0 NE2 K:HIS68 2.3 105.2 1.0 NE2 K:HIS157 2.3 106.4 1.0 ZN K:ZN701 2.3 116.6 1.0 CG K:ASP178 2.9 114.8 1.0 CE1 K:HIS68 3.0 105.2 1.0 CE1 K:HIS70 3.1 110.4 1.0 CD2 K:HIS157 3.2 106.4 1.0 CE1 K:HIS157 3.2 106.4 1.0 CD2 K:HIS73 3.3 111.8 1.0 CB K:ASP178 3.3 114.8 1.0 NE2 K:HIS73 3.4 111.8 1.0 CG K:HIS70 3.4 110.4 1.0 CD2 K:HIS68 3.5 105.2 1.0 CB K:HIS70 3.8 110.4 1.0 NE2 K:HIS392 3.9 113.2 1.0 OD1 K:ASP178 4.0 114.8 1.0 ND1 K:HIS68 4.2 105.2 1.0 ND1 K:HIS157 4.2 106.4 1.0 CG K:HIS157 4.2 106.4 1.0 NE2 K:HIS70 4.3 110.4 1.0 CG K:HIS73 4.3 111.8 1.0 OH K:TYR353 4.4 132.8 1.0 CE1 K:HIS73 4.4 111.8 1.0 CG K:HIS68 4.4 105.2 1.0 CD2 K:HIS70 4.4 110.4 1.0 OD2 K:ASP72 4.5 117.1 1.0 NE2 K:HIS414 4.6 112.5 1.0 OD1 K:ASP72 4.6 117.1 1.0 CE1 K:HIS392 4.6 113.2 1.0 CE1 K:HIS414 4.7 112.5 1.0 CA K:ASP178 4.8 114.8 1.0 CD2 K:HIS392 4.8 113.2 1.0 ND1 K:HIS73 4.9 111.8 1.0 CG K:ASP72 4.9 117.1 1.0

C.Xu, Q.Zhou, H.Zheng, A.Song, W.Zhao, Y.Xiong, Z.Huang, Y.Xu, J.Cheng, F.X.Chen. Stabilization of Integrator/Intac By the Small But Versatile DSS1 Protein. To Be Published.