Zinc in PDB 8h3f: Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex

All present enzymatic activity of Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex:
2.3.2.27; 2.3.2.32;

The binding sites of Zinc atom in the Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex (pdb code 8h3f). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex, PDB code: 8h3f:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Cryo-Em Structure of the KBTBD2-CRL3-Csn 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 KBTBD2-CRL3-Csn Complex within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn401 b:149.1 occ:1.00 OE1 E:GLU104 2.0 174.6 1.0 OD2 E:ASP151 2.0 184.6 1.0 NE2 E:HIS140 2.0 174.3 1.0 NE2 E:HIS138 2.1 175.2 1.0 CG E:ASP151 2.7 179.9 1.0 CD E:GLU104 2.7 170.4 1.0 OE2 E:GLU104 2.8 167.3 1.0 OD1 E:ASP151 2.8 180.8 1.0 CD2 E:HIS138 2.9 173.9 1.0 CD2 E:HIS140 3.0 172.8 1.0 CE1 E:HIS140 3.1 173.5 1.0 CE1 E:HIS138 3.2 173.2 1.0 CG E:HIS140 4.1 173.1 1.0 CG E:HIS138 4.1 172.8 1.0 CB E:ASP151 4.1 176.3 1.0 ND1 E:HIS140 4.1 173.5 1.0 CG E:GLU104 4.2 171.7 1.0 ND1 E:HIS138 4.2 173.1 1.0 O E:TRP146 4.4 163.7 1.0 OG E:SER148 4.5 167.7 1.0 OH E:TYR143 4.6 175.8 1.0 CB E:GLU104 4.8 172.1 1.0 N E:SER148 4.8 163.0 1.0

Zinc binding site 2 out of 4 in the Cryo-Em Structure of the KBTBD2-CRL3-Csn 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 KBTBD2-CRL3-Csn Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn4001 b:104.2 occ:1.00 CE1 R:HIS80 2.2 112.3 1.0 ND1 R:HIS80 2.3 112.2 1.0 SG R:CYS42 2.3 136.0 1.0 SG R:CYS45 2.6 137.7 1.0 CB R:CYS42 3.2 136.2 1.0 NE2 R:HIS80 3.3 112.3 1.0 CG R:HIS80 3.4 112.4 1.0 O R:HIS48 3.5 141.4 1.0 CD2 R:HIS80 3.9 112.3 1.0 CB R:CYS45 4.1 137.7 1.0 CA R:CYS42 4.1 136.3 1.0 N R:CYS42 4.2 136.5 1.0 SG R:CYS83 4.3 118.1 1.0 N R:CYS45 4.3 137.4 1.0 CB R:HIS80 4.4 112.5 1.0 N R:HIS80 4.4 112.2 1.0 N R:ARG46 4.5 138.5 1.0 C R:CYS42 4.5 136.2 1.0 C R:HIS48 4.5 141.4 1.0 N R:ASN47 4.6 139.5 1.0 O R:CYS42 4.6 136.3 1.0 N R:HIS48 4.6 140.7 1.0 CA R:CYS45 4.6 137.8 1.0 ND2 R:ASN47 4.7 139.8 1.0 OD1 R:ASN41 4.8 136.6 1.0 C R:CYS45 4.8 138.1 1.0

Zinc binding site 3 out of 4 in the Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn4002 b:92.5 occ:1.00 ND1 R:HIS77 2.3 113.1 1.0 SG R:CYS75 2.3 115.9 1.0 SG R:CYS94 2.3 129.2 1.0 CB R:HIS77 2.7 112.9 1.0 CZ3 R:TRP101 2.7 128.8 1.0 CG R:HIS77 2.8 112.9 1.0 CE3 R:TRP101 2.9 129.1 1.0 CE1 R:HIS77 3.5 113.2 1.0 OD2 R:ASP97 3.9 131.3 1.0 CA R:HIS77 4.0 112.9 1.0 CH2 R:TRP101 4.0 128.8 1.0 CE2 R:PHE79 4.0 110.4 1.0 CB R:CYS75 4.0 116.0 1.0 CB R:CYS94 4.1 130.0 1.0 CD2 R:HIS77 4.1 113.0 1.0 N R:HIS77 4.1 113.4 1.0 CD2 R:TRP101 4.2 129.3 1.0 CZ R:PHE79 4.3 110.4 1.0 NE2 R:HIS77 4.4 113.1 1.0 CG R:ASP97 4.4 131.3 1.0 OD1 R:ASP97 4.6 131.1 1.0 C R:HIS77 4.7 112.6 1.0 CB R:LEU96 4.7 130.6 1.0 CA R:CYS94 5.0 130.1 1.0

Zinc binding site 4 out of 4 in the Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn4003 b:104.9 occ:1.00 SG R:CYS56 2.3 146.0 1.0 SG R:CYS68 2.3 133.8 1.0 CB R:CYS68 2.8 134.2 1.0 CB R:CYS56 2.9 146.0 1.0 SG R:CYS53 3.1 143.1 1.0 ND1 R:HIS82 3.4 115.0 1.0 OE1 R:GLU66 3.7 140.9 1.0 CE1 R:HIS82 3.8 114.9 1.0 CD1 R:LEU52 3.9 143.2 1.0 N R:CYS53 4.2 143.3 1.0 CB R:CYS53 4.2 143.4 1.0 CA R:CYS56 4.3 146.0 1.0 CA R:CYS68 4.3 134.1 1.0 CG R:HIS82 4.4 115.1 1.0 N R:CYS56 4.5 145.7 1.0 CA R:CYS53 4.8 143.5 1.0 CA R:LEU52 4.8 143.2 1.0 C R:LEU52 4.9 143.2 1.0 CD R:GLU66 4.9 140.9 1.0 CB R:HIS82 4.9 115.4 1.0 O R:CYS68 4.9 132.8 1.0 NE2 R:HIS82 5.0 114.7 1.0

Y.Hu, Q.Mao, Z.Chen, L.Sun. Cryo-Em Structure of the KBTBD2-CRL3-Csn Complex To Be Published.