Zinc in PDB 8tnq: Cryo-Em Structure of DDB1DB:Crbn:Pt-179:SD40, Conformation 1

The binding sites of Zinc atom in the Cryo-Em Structure of DDB1DB:Crbn:Pt-179:SD40, Conformation 1 (pdb code 8tnq). 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 DDB1DB:Crbn:Pt-179:SD40, Conformation 1, PDB code: 8tnq:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of DDB1DB:Crbn:Pt-179:SD40, Conformation 1


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 DDB1DB:Crbn:Pt-179:SD40, Conformation 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn501 b:238.2 occ:1.00 SG B:CYS394 2.3 172.7 1.0 SG B:CYS391 2.3 160.4 1.0 SG B:CYS326 2.3 170.2 1.0 SG B:CYS323 2.3 157.0 1.0 HB3 B:CYS394 3.0 162.6 1.0 OE1 B:GLN325 3.0 168.2 1.0 HB3 B:CYS323 3.1 154.8 1.0 H B:CYS326 3.1 164.6 1.0 CB B:CYS323 3.1 153.5 1.0 HB3 B:CYS391 3.1 154.6 1.0 H B:CYS394 3.1 161.8 1.0 HB2 B:CYS323 3.2 154.7 1.0 HB2 B:CYS326 3.2 164.4 1.0 CB B:CYS391 3.2 153.4 1.0 HB2 B:CYS391 3.2 155.1 1.0 CB B:CYS394 3.2 163.8 1.0 CB B:CYS326 3.3 164.0 1.0 N B:CYS326 3.8 167.0 1.0 HB3 B:GLN325 3.8 161.9 1.0 N B:CYS394 3.9 161.0 1.0 HB2 B:CYS394 4.0 162.4 1.0 HB B:THR329 4.1 158.6 1.0 HB B:ILE393 4.1 156.1 1.0 CA B:CYS326 4.1 163.9 1.0 HB3 B:CYS326 4.1 164.1 1.0 CA B:CYS394 4.1 162.1 1.0 HB3 B:SER396 4.1 154.9 1.0 CD B:GLN325 4.2 166.0 1.0 HG1 B:THR329 4.2 158.4 1.0 HG22 B:ILE393 4.3 156.0 1.0 HD11 B:ILE398 4.3 138.6 1.0 H B:SER396 4.4 155.6 1.0 HA B:CYS326 4.4 164.4 1.0 H B:ILE393 4.5 156.4 1.0 CA B:CYS323 4.6 154.1 1.0 CA B:CYS391 4.6 153.0 1.0 H B:GLN325 4.7 161.8 1.0 CB B:GLN325 4.7 159.7 1.0 OG1 B:THR329 4.7 157.8 1.0 HG21 B:THR329 4.8 157.8 1.0 C B:GLN325 4.8 163.8 1.0 CB B:THR329 4.8 158.8 1.0 C B:CYS394 4.8 162.2 1.0 H B:ALA395 4.9 157.4 1.0 HE22 B:GLN325 4.9 162.7 1.0 CB B:ILE393 4.9 155.4 1.0 HA B:CYS391 4.9 154.8 1.0 HB2 B:SER396 4.9 154.9 1.0 HA B:CYS394 4.9 162.3 1.0 CB B:SER396 4.9 153.6 1.0 HA B:CYS323 5.0 154.9 1.0 NE2 B:GLN325 5.0 165.6 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of DDB1DB:Crbn:Pt-179:SD40, Conformation 1


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 DDB1DB:Crbn:Pt-179:SD40, Conformation 1 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn101 b:206.6 occ:1.00 NE2 C:HIS39 2.0 157.0 1.0 NE2 C:HIS35 2.0 175.4 1.0 SG C:CYS19 2.3 165.2 1.0 SG C:CYS22 2.3 157.8 1.0 H C:CYS22 2.6 148.6 1.0 CD2 C:HIS39 2.8 156.7 1.0 HB C:ILE21 2.8 146.6 1.0 HD2 C:HIS39 2.8 158.2 1.0 CE1 C:HIS35 3.0 174.1 1.0 CD2 C:HIS35 3.0 172.5 1.0 CE1 C:HIS39 3.1 157.2 1.0 HD2 C:HIS35 3.2 171.1 1.0 HE1 C:HIS35 3.2 170.8 1.0 N C:CYS22 3.3 147.7 1.0 HB3 C:CYS19 3.4 158.1 1.0 CB C:CYS22 3.4 148.9 1.0 HB3 C:CYS22 3.4 148.5 1.0 HE1 C:HIS39 3.4 157.5 1.0 CB C:CYS19 3.5 155.3 1.0 H C:ILE21 3.7 146.6 1.0 CB C:ILE21 3.7 144.0 1.0 HB2 C:CYS19 3.8 158.5 1.0 HG22 C:ILE21 3.8 146.1 1.0 CG C:HIS39 4.0 156.1 1.0 CA C:CYS22 4.0 145.9 1.0 ND1 C:HIS35 4.0 173.4 1.0 HD12 C:ILE21 4.0 146.4 1.0 H C:PHE24 4.0 159.9 1.0 CG C:HIS35 4.1 172.1 1.0 HB3 C:PHE24 4.1 159.9 1.0 ND1 C:HIS39 4.1 156.4 1.0 HB2 C:PHE24 4.1 159.9 1.0 HA C:ILE36 4.2 163.2 1.0 CG2 C:ILE21 4.3 144.3 1.0 HB2 C:CYS22 4.3 148.0 1.0 H C:GLY23 4.3 146.2 1.0 C C:ILE21 4.3 146.1 1.0 HG12 C:ILE36 4.3 163.1 1.0 CA C:ILE21 4.3 144.3 1.0 N C:ILE21 4.3 144.4 1.0 HG21 C:ILE21 4.5 146.0 1.0 CB C:PHE24 4.6 158.3 1.0 CD1 C:ILE21 4.7 145.1 1.0 CG1 C:ILE21 4.7 143.8 1.0 N C:GLY23 4.7 145.2 1.0 HA C:CYS22 4.7 148.0 1.0 HD13 C:ILE21 4.8 146.2 1.0 HB2 B:HIS397 4.8 138.4 1.0 CA C:CYS19 4.8 156.4 1.0 HD1 C:HIS35 4.8 170.9 1.0 C C:CYS22 4.8 145.3 1.0 HD2 C:PRO20 4.8 154.6 1.0 N C:PHE24 4.9 160.2 1.0 HD1 C:HIS39 4.9 157.8 1.0 HB3 B:HIS397 4.9 138.6 1.0 C C:CYS19 4.9 157.2 1.0 HG13 C:ILE21 5.0 146.2 1.0

S.S.Roy Burman, S.S.Roy Burman, M.Hunkeler, E.S.Fischer. N/A N/A.