Zinc in PDB 8tnr: Cryo-Em Structure of DDB1DB:Crbn:Pt-179:SD40, Conformation 2

The binding sites of Zinc atom in the Cryo-Em Structure of DDB1DB:Crbn:Pt-179:SD40, Conformation 2 (pdb code 8tnr). 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 2, PDB code: 8tnr:
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 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn501 b:223.2 occ:1.00 SG B:CYS394 2.3 164.0 1.0 SG B:CYS326 2.3 172.3 1.0 SG B:CYS391 2.3 162.3 1.0 SG B:CYS323 2.3 148.8 1.0 H B:CYS394 2.9 163.7 1.0 HB2 B:CYS326 3.0 166.7 1.0 HB3 B:CYS391 3.0 159.0 1.0 CB B:CYS391 3.1 158.8 1.0 HB3 B:CYS394 3.1 163.3 1.0 CB B:CYS326 3.2 166.8 1.0 HB2 B:CYS391 3.3 159.4 1.0 CB B:CYS394 3.3 162.4 1.0 H B:CYS326 3.4 166.3 1.0 CB B:CYS323 3.4 146.2 1.0 HB3 B:CYS323 3.4 148.2 1.0 HB2 B:GLN325 3.5 159.9 1.0 N B:CYS326 3.5 168.1 1.0 HB2 B:CYS323 3.5 148.0 1.0 N B:CYS394 3.7 165.3 1.0 HB B:ILE393 3.8 158.3 1.0 C B:GLN325 3.9 160.2 1.0 CA B:CYS326 3.9 167.0 1.0 HB3 B:CYS326 4.0 166.5 1.0 HG1 B:THR329 4.1 160.7 1.0 HB3 B:SER396 4.1 155.5 1.0 CA B:CYS394 4.1 164.8 1.0 HB3 B:GLN325 4.1 159.4 1.0 HB2 B:CYS394 4.1 163.2 1.0 CB B:GLN325 4.1 160.8 1.0 HB B:THR329 4.2 160.9 1.0 HG22 B:ILE393 4.2 158.3 1.0 H B:SER396 4.3 155.3 1.0 HA B:CYS326 4.3 166.5 1.0 H B:ILE393 4.4 158.6 1.0 O B:GLN325 4.4 158.1 1.0 CA B:GLN325 4.5 160.6 1.0 H B:GLN325 4.5 159.2 1.0 CA B:CYS391 4.6 158.4 1.0 CB B:ILE393 4.6 158.7 1.0 OG1 B:THR329 4.6 160.9 1.0 N B:GLN325 4.7 160.8 1.0 H B:ALA395 4.8 157.6 1.0 C B:ILE393 4.8 158.6 1.0 CA B:CYS323 4.8 147.1 1.0 C B:CYS394 4.8 165.1 1.0 HB2 B:SER396 4.9 155.6 1.0 CG2 B:ILE393 4.9 157.0 1.0 CB B:THR329 4.9 161.8 1.0 CB B:SER396 4.9 155.8 1.0 HA B:CYS394 4.9 163.6 1.0 HD11 B:ILE398 4.9 138.8 1.0 N B:ILE393 4.9 160.4 1.0 HG21 B:THR329 4.9 160.3 1.0 C B:CYS391 5.0 159.8 1.0 HA B:CYS391 5.0 158.8 1.0

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


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn101 b:206.1 occ:1.00 HE1 C:HIS35 1.6 160.6 1.0 HE2 C:HIS35 1.7 160.6 1.0 CE1 C:HIS35 2.0 164.5 1.0 NE2 C:HIS39 2.0 159.7 1.0 NE2 C:HIS35 2.0 165.9 1.0 SG C:CYS19 2.3 150.0 1.0 SG C:CYS22 2.3 163.4 1.0 H C:CYS22 2.6 152.6 1.0 CE1 C:HIS39 2.9 158.0 1.0 HE1 C:HIS39 3.1 156.7 1.0 CD2 C:HIS39 3.1 158.3 1.0 HB C:ILE21 3.3 141.0 1.0 HB2 C:PHE24 3.3 152.9 1.0 ND1 C:HIS35 3.3 164.7 1.0 HD2 C:HIS39 3.3 157.0 1.0 N C:CYS22 3.4 154.1 1.0 CB C:CYS19 3.4 148.8 1.0 HG22 C:ILE21 3.4 140.7 1.0 CD2 C:HIS35 3.4 163.6 1.0 HB3 C:CYS19 3.4 149.6 1.0 HB2 C:CYS19 3.4 150.3 1.0 HD2 C:PHE24 3.4 153.4 1.0 CB C:CYS22 3.5 151.1 1.0 HB3 C:CYS22 3.7 152.2 1.0 CA C:CYS22 3.9 153.1 1.0 O C:CYS22 4.0 158.2 1.0 CG C:HIS35 4.0 161.2 1.0 CB C:ILE21 4.0 139.2 1.0 HD2 C:HIS35 4.0 160.6 1.0 ND1 C:HIS39 4.1 156.3 1.0 CG2 C:ILE21 4.1 140.3 1.0 H C:PHE24 4.1 152.7 1.0 H C:ILE21 4.1 141.0 1.0 CB C:PHE24 4.2 150.6 1.0 CG C:HIS39 4.2 154.9 1.0 HB2 B:HIS397 4.2 141.6 1.0 C C:CYS22 4.2 155.3 1.0 CD2 C:PHE24 4.3 155.3 1.0 HB2 C:CYS22 4.3 152.2 1.0 HG21 C:ILE21 4.4 140.6 1.0 HB3 C:PHE24 4.4 152.7 1.0 C C:ILE21 4.4 142.8 1.0 CA C:ILE21 4.6 137.2 1.0 HA C:ILE36 4.7 153.5 1.0 N C:ILE21 4.7 138.1 1.0 HG12 C:ILE36 4.7 153.4 1.0 CG C:PHE24 4.8 155.2 1.0 CA C:CYS19 4.8 150.8 1.0 HB3 B:HIS397 4.8 141.5 1.0 HA C:CYS22 4.8 152.0 1.0 HD1 C:HIS39 4.8 156.8 1.0 CB B:HIS397 4.9 141.2 1.0 N C:PHE24 4.9 151.5 1.0 HG23 C:ILE21 4.9 140.0 1.0

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