Zinc in PDB 8c06: Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5

All present enzymatic activity of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5:
2.3.2.26;

The binding sites of Zinc atom in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 (pdb code 8c06). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5, PDB code: 8c06:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2801 b:48.6 occ:1.00 SG A:CYS1208 2.3 42.4 1.0 SG A:CYS1232 2.3 42.2 1.0 SG A:CYS1211 2.3 41.4 1.0 SG A:CYS1179 2.3 39.2 1.0 CB A:CYS1232 3.7 42.2 1.0 CB A:CYS1208 3.8 42.4 1.0 CB A:CYS1211 3.8 41.4 1.0 CB A:CYS1179 3.9 39.2 1.0 N A:CYS1208 3.9 42.4 1.0 ZN A:ZN2802 4.0 61.0 1.0 N A:SER1180 4.1 37.5 1.0 SG A:CYS1240 4.3 40.9 1.0 CA A:CYS1208 4.4 42.4 1.0 CA A:CYS1179 4.4 39.2 1.0 CB A:CYS1234 4.5 44.2 1.0 N A:CYS1211 4.5 41.4 1.0 CA A:CYS1211 4.6 41.4 1.0 C A:CYS1179 4.6 39.2 1.0 OG1 A:THR1242 4.7 38.8 1.0 CA A:CYS1232 4.9 42.2 1.0 N A:PHE1181 4.9 39.0 1.0 C A:CYS1207 4.9 44.4 1.0 C A:CYS1208 4.9 42.4 1.0

Zinc binding site 2 out of 6 in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2802 b:61.0 occ:1.00 SG A:CYS1240 2.3 40.9 1.0 SG A:CYS1234 2.3 44.2 1.0 SG A:CYS1215 2.3 43.8 1.0 SG A:CYS1211 2.3 41.4 1.0 CB A:CYS1211 3.3 41.4 1.0 CB A:CYS1234 3.3 44.2 1.0 CB A:CYS1240 3.5 40.9 1.0 CB A:CYS1215 3.8 43.8 1.0 CA A:CYS1211 3.9 41.4 1.0 ZN A:ZN2801 4.0 48.6 1.0 CA A:CYS1240 4.1 40.9 1.0 OG1 A:THR1242 4.1 38.8 1.0 SG A:CYS1179 4.5 39.2 1.0 CA A:CYS1234 4.7 44.2 1.0 C A:CYS1211 4.9 41.4 1.0 N A:CYS1211 4.9 41.4 1.0 O A:CYS1211 4.9 41.4 1.0 SG A:CYS1232 4.9 42.2 1.0 C A:CYS1240 4.9 40.9 1.0 N A:LYS1241 5.0 40.6 1.0

Zinc binding site 3 out of 6 in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2803 b:50.3 occ:1.00 ND1 A:HIS1216 2.0 43.2 1.0 ND1 A:HIS1219 2.0 44.6 1.0 SG A:CYS1196 2.3 48.1 1.0 SG A:CYS1199 2.3 47.5 1.0 CE1 A:HIS1216 2.6 43.2 1.0 CE1 A:HIS1219 2.8 44.6 1.0 CG A:HIS1219 3.2 44.6 1.0 CG A:HIS1216 3.2 43.2 1.0 CB A:CYS1199 3.3 47.5 1.0 CB A:CYS1196 3.5 48.1 1.0 CB A:HIS1219 3.7 44.6 1.0 N A:CYS1199 3.8 47.5 1.0 CB A:HIS1216 3.9 43.2 1.0 NE2 A:HIS1216 3.9 43.2 1.0 NE2 A:HIS1219 4.0 44.6 1.0 CA A:CYS1199 4.1 47.5 1.0 CD2 A:HIS1216 4.1 43.2 1.0 CA A:HIS1216 4.2 43.2 1.0 CD2 A:HIS1219 4.2 44.6 1.0 CB A:THR1198 4.3 46.5 1.0 C A:THR1198 4.7 46.5 1.0 CG2 A:THR1198 4.8 46.5 1.0 CA A:CYS1196 4.9 48.1 1.0 CA A:THR1198 4.9 46.5 1.0 N A:HIS1216 5.0 43.2 1.0

Zinc binding site 4 out of 6 in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn2801 b:48.4 occ:1.00 SG D:CYS1179 2.3 39.8 1.0 SG D:CYS1232 2.3 40.6 1.0 SG D:CYS1211 2.3 41.6 1.0 SG D:CYS1208 2.3 42.2 1.0 CB D:CYS1232 3.7 40.6 1.0 CB D:CYS1179 3.8 39.8 1.0 CB D:CYS1211 3.8 41.6 1.0 CB D:CYS1208 3.8 42.2 1.0 N D:CYS1208 3.9 42.2 1.0 ZN D:ZN2802 3.9 59.3 1.0 N D:SER1180 4.1 37.5 1.0 SG D:CYS1240 4.2 39.1 1.0 CA D:CYS1179 4.4 39.8 1.0 CA D:CYS1208 4.4 42.2 1.0 CB D:CYS1234 4.5 42.1 1.0 N D:CYS1211 4.6 41.6 1.0 OG1 D:THR1242 4.6 38.0 1.0 C D:CYS1179 4.6 39.8 1.0 CA D:CYS1211 4.7 41.6 1.0 N D:PHE1181 4.9 38.5 1.0 CA D:CYS1232 4.9 40.6 1.0 C D:CYS1207 5.0 43.5 1.0

Zinc binding site 5 out of 6 in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn2802 b:59.3 occ:1.00 SG D:CYS1240 2.3 39.1 1.0 SG D:CYS1234 2.3 42.1 1.0 SG D:CYS1215 2.3 43.5 1.0 SG D:CYS1211 2.3 41.6 1.0 CB D:CYS1211 3.3 41.6 1.0 CB D:CYS1234 3.3 42.1 1.0 CB D:CYS1240 3.5 39.1 1.0 CB D:CYS1215 3.8 43.5 1.0 CA D:CYS1211 3.9 41.6 1.0 ZN D:ZN2801 3.9 48.4 1.0 CA D:CYS1240 4.1 39.1 1.0 OG1 D:THR1242 4.1 38.0 1.0 SG D:CYS1179 4.5 39.8 1.0 CA D:CYS1234 4.7 42.1 1.0 C D:CYS1211 4.9 41.6 1.0 N D:CYS1211 4.9 41.6 1.0 O D:CYS1211 4.9 41.6 1.0 SG D:CYS1232 4.9 40.6 1.0 C D:CYS1240 4.9 39.1 1.0 N D:LYS1241 5.0 39.2 1.0

Zinc binding site 6 out of 6 in the Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn2803 b:46.6 occ:1.00 ND1 D:HIS1216 2.0 41.6 1.0 ND1 D:HIS1219 2.0 41.8 1.0 SG D:CYS1196 2.3 45.3 1.0 SG D:CYS1199 2.3 44.6 1.0 CE1 D:HIS1216 2.6 41.6 1.0 CE1 D:HIS1219 2.8 41.8 1.0 CG D:HIS1219 3.2 41.8 1.0 CG D:HIS1216 3.2 41.6 1.0 CB D:CYS1199 3.3 44.6 1.0 CB D:CYS1196 3.5 45.3 1.0 CB D:HIS1219 3.7 41.8 1.0 N D:CYS1199 3.8 44.6 1.0 CB D:HIS1216 3.9 41.6 1.0 NE2 D:HIS1216 3.9 41.6 1.0 NE2 D:HIS1219 4.0 41.8 1.0 CA D:CYS1199 4.1 44.6 1.0 CD2 D:HIS1216 4.1 41.6 1.0 CA D:HIS1216 4.2 41.6 1.0 CD2 D:HIS1219 4.2 41.8 1.0 CB D:THR1198 4.3 43.3 1.0 C D:THR1198 4.7 43.3 1.0 CG2 D:THR1198 4.8 43.3 1.0 CA D:CYS1196 4.9 45.3 1.0 CA D:THR1198 4.9 43.3 1.0 N D:HIS1216 5.0 41.6 1.0

L.A.Hehl, B.A.Schulman. Structure of Dimeric Hect E3 Ubiquitin Ligase UBR5 To Be Published.
DOI: 10.1038/S41589-023-01414-2