Zinc in PDB 8ewi: Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form

All present enzymatic activity of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form:
2.3.2.26;

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Zinc atom in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form (pdb code 8ewi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form, PDB code: 8ewi:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2801 b:75.0 occ:1.00 SG A:CYS1208 2.3 83.0 1.0 SG A:CYS1179 2.3 84.8 1.0 SG A:CYS1232 2.3 84.6 1.0 SG A:CYS1211 2.3 84.8 1.0 CB A:CYS1211 3.1 84.8 1.0 CB A:CYS1232 3.3 84.6 1.0 CB A:CYS1179 3.5 84.8 1.0 CB A:CYS1208 3.7 83.0 1.0 N A:CYS1208 3.9 83.0 1.0 N A:SER1180 3.9 88.9 1.0 N A:CYS1211 4.2 84.8 1.0 CA A:CYS1179 4.2 84.8 1.0 CA A:CYS1211 4.2 84.8 1.0 ZN A:ZN2802 4.4 95.9 1.0 CA A:CYS1208 4.4 83.0 1.0 C A:CYS1179 4.6 84.8 1.0 CB A:CYS1234 4.6 90.1 1.0 CB A:SER1180 4.7 88.9 1.0 CA A:CYS1232 4.8 84.6 1.0 N A:PHE1181 4.8 87.3 1.0 CA A:SER1180 4.9 88.9 1.0 OG1 A:THR1242 4.9 69.6 1.0 C A:CYS1207 4.9 80.5 1.0

Zinc binding site 2 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2802 b:95.9 occ:1.00 SG A:CYS1240 2.3 86.0 1.0 SG A:CYS1215 2.3 74.4 1.0 SG A:CYS1211 2.3 84.8 1.0 SG A:CYS1234 2.3 90.1 1.0 CB A:CYS1215 3.3 74.4 1.0 CB A:CYS1211 3.4 84.8 1.0 CB A:CYS1240 3.4 86.0 1.0 CB A:CYS1234 3.4 90.1 1.0 OG1 A:THR1242 3.5 69.6 1.0 CA A:CYS1240 3.9 86.0 1.0 CA A:CYS1211 4.3 84.8 1.0 ZN A:ZN2801 4.4 75.0 1.0 CA A:CYS1234 4.7 90.1 1.0 CB A:THR1242 4.7 69.6 1.0 C A:CYS1234 4.7 90.1 1.0 CG2 A:THR1242 4.7 69.6 1.0 CA A:CYS1215 4.8 74.4 1.0 C A:CYS1240 4.8 86.0 1.0 O A:CYS1211 4.8 84.8 1.0 O A:CYS1234 4.9 90.1 1.0

Zinc binding site 3 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2803 b:107.1 occ:1.00 ND1 A:HIS1216 2.0 75.1 1.0 ND1 A:HIS1219 2.0 76.6 1.0 SG A:CYS1199 2.3 84.7 1.0 SG A:CYS1196 2.3 84.5 1.0 OG1 A:THR1198 2.4 85.2 1.0 CE1 A:HIS1219 2.5 76.6 1.0 CE1 A:HIS1216 2.6 75.1 1.0 CG A:HIS1216 3.1 75.1 1.0 CG A:HIS1219 3.3 76.6 1.0 CB A:CYS1199 3.5 84.7 1.0 N A:CYS1199 3.6 84.7 1.0 NE2 A:HIS1216 3.7 75.1 1.0 CB A:HIS1216 3.8 75.1 1.0 NE2 A:HIS1219 3.8 76.6 1.0 CB A:THR1198 3.8 85.2 1.0 CB A:CYS1196 3.9 84.5 1.0 CD2 A:HIS1216 3.9 75.1 1.0 CB A:HIS1219 4.0 76.6 1.0 CD2 A:HIS1219 4.1 76.6 1.0 CA A:CYS1199 4.2 84.7 1.0 CA A:HIS1216 4.3 75.1 1.0 C A:THR1198 4.3 85.2 1.0 CA A:THR1198 4.5 85.2 1.0 N A:THR1198 4.7 85.2 1.0 O A:CYS1215 4.7 74.4 1.0 CG2 A:THR1198 4.8 85.2 1.0

Zinc binding site 4 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn2801 b:103.6 occ:1.00 SG B:CYS1179 2.3 103.1 1.0 SG B:CYS1232 2.3 110.5 1.0 SG B:CYS1208 2.3 97.8 1.0 SG B:CYS1211 2.3 99.5 1.0 CB B:CYS1211 3.1 99.5 1.0 CB B:CYS1179 3.4 103.1 1.0 CB B:CYS1232 3.5 110.5 1.0 CB B:CYS1208 3.7 97.8 1.0 N B:CYS1208 3.8 97.8 1.0 N B:SER1180 3.9 102.4 1.0 N B:CYS1211 4.0 99.5 1.0 CA B:CYS1179 4.0 103.1 1.0 CA B:CYS1211 4.1 99.5 1.0 CA B:CYS1208 4.3 97.8 1.0 ZN B:ZN2802 4.4 125.0 1.0 C B:CYS1179 4.4 103.1 1.0 CB B:CYS1234 4.6 113.8 1.0 OG1 B:THR1242 4.7 91.4 1.0 N B:PHE1181 4.7 104.9 1.0 CB B:SER1180 4.8 102.4 1.0 CA B:SER1180 4.9 102.4 1.0 CA B:CYS1232 4.9 110.5 1.0 C B:CYS1207 4.9 102.5 1.0 C B:CYS1208 4.9 97.8 1.0 O B:CYS1208 5.0 97.8 1.0

Zinc binding site 5 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn2802 b:125.0 occ:1.00 SG B:CYS1215 2.3 94.9 1.0 SG B:CYS1240 2.3 109.5 1.0 SG B:CYS1211 2.3 99.5 1.0 SG B:CYS1234 2.3 113.8 1.0 CB B:CYS1215 3.4 94.9 1.0 CB B:CYS1234 3.4 113.8 1.0 OG1 B:THR1242 3.4 91.4 1.0 CB B:CYS1211 3.5 99.5 1.0 CB B:CYS1240 3.7 109.5 1.0 CA B:CYS1240 4.0 109.5 1.0 CA B:CYS1211 4.3 99.5 1.0 ZN B:ZN2801 4.4 103.6 1.0 C B:CYS1234 4.6 113.8 1.0 CA B:CYS1234 4.6 113.8 1.0 CB B:THR1242 4.6 91.4 1.0 CG2 B:THR1242 4.7 91.4 1.0 N B:LYS1241 4.7 101.4 1.0 O B:CYS1234 4.7 113.8 1.0 C B:CYS1240 4.8 109.5 1.0 CA B:CYS1215 4.8 94.9 1.0 N B:THR1242 4.9 91.4 1.0 N B:TRP1235 4.9 110.2 1.0

Zinc binding site 6 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn2803 b:111.1 occ:1.00 ND1 B:HIS1216 2.0 93.5 1.0 ND1 B:HIS1219 2.0 100.9 1.0 SG B:CYS1196 2.3 106.9 1.0 SG B:CYS1199 2.3 110.1 1.0 CE1 B:HIS1216 2.4 93.5 1.0 CE1 B:HIS1219 2.8 100.9 1.0 CG B:HIS1219 3.2 100.9 1.0 CG B:HIS1216 3.2 93.5 1.0 N B:CYS1199 3.3 110.1 1.0 CB B:CYS1199 3.4 110.1 1.0 NE2 B:HIS1216 3.6 93.5 1.0 CB B:THR1198 3.7 112.3 1.0 CB B:HIS1219 3.7 100.9 1.0 CB B:CYS1196 3.9 106.9 1.0 CA B:CYS1199 3.9 110.1 1.0 NE2 B:HIS1219 4.0 100.9 1.0 CD2 B:HIS1216 4.0 93.5 1.0 CB B:HIS1216 4.0 93.5 1.0 C B:THR1198 4.1 112.3 1.0 CG2 B:THR1198 4.2 112.3 1.0 CD2 B:HIS1219 4.2 100.9 1.0 CA B:THR1198 4.3 112.3 1.0 N B:THR1198 4.6 112.3 1.0 OG1 B:THR1198 4.7 112.3 1.0 CA B:HIS1216 4.7 93.5 1.0

Zinc binding site 7 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn2801 b:99.8 occ:1.00 SG C:CYS1211 2.3 94.5 1.0 SG C:CYS1208 2.3 95.4 1.0 SG C:CYS1179 2.3 103.4 1.0 SG C:CYS1232 2.3 96.2 1.0 CB C:CYS1232 3.1 96.2 1.0 CB C:CYS1211 3.5 94.5 1.0 CB C:CYS1179 3.5 103.4 1.0 CB C:CYS1208 3.9 95.4 1.0 N C:SER1180 4.0 100.3 1.0 ZN C:ZN2802 4.0 113.5 1.0 N C:CYS1208 4.1 95.4 1.0 CA C:CYS1179 4.1 103.4 1.0 N C:CYS1211 4.4 94.5 1.0 C C:CYS1179 4.5 103.4 1.0 CA C:CYS1208 4.5 95.4 1.0 CA C:CYS1211 4.5 94.5 1.0 CA C:CYS1232 4.6 96.2 1.0 SG C:CYS1234 4.7 99.7 1.0 N C:PHE1181 4.8 102.0 1.0 CB C:SER1180 4.8 100.3 1.0 OG1 C:THR1242 4.9 92.0 1.0 SG C:CYS1240 4.9 99.8 1.0 CA C:SER1180 5.0 100.3 1.0

Zinc binding site 8 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn2802 b:113.5 occ:1.00 SG C:CYS1240 2.3 99.8 1.0 SG C:CYS1211 2.3 94.5 1.0 SG C:CYS1215 2.3 82.3 1.0 SG C:CYS1234 2.3 99.7 1.0 CB C:CYS1240 2.9 99.8 1.0 CB C:CYS1211 3.1 94.5 1.0 OG1 C:THR1242 3.2 92.0 1.0 CA C:CYS1240 3.4 99.8 1.0 CB C:CYS1215 3.5 82.3 1.0 ZN C:ZN2801 4.0 99.8 1.0 CB C:CYS1234 4.1 99.7 1.0 C C:CYS1240 4.2 99.8 1.0 CA C:CYS1211 4.2 94.5 1.0 CB C:THR1242 4.5 92.0 1.0 N C:LYS1241 4.6 100.0 1.0 N C:CYS1240 4.6 99.8 1.0 N C:THR1242 4.7 92.0 1.0 SG C:CYS1179 4.7 103.4 1.0 CG2 C:THR1242 4.8 92.0 1.0 SG C:CYS1232 4.8 96.2 1.0 CB C:CYS1179 4.8 103.4 1.0 O C:CYS1240 4.8 99.8 1.0 CA C:CYS1215 4.9 82.3 1.0 NE2 C:HIS1216 4.9 83.0 1.0 CD2 C:HIS1216 5.0 83.0 1.0

Zinc binding site 9 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn2803 b:93.7 occ:1.00 ND1 C:HIS1219 2.0 82.0 1.0 ND1 C:HIS1216 2.0 83.0 1.0 CE1 C:HIS1219 2.2 82.0 1.0 SG C:CYS1199 2.3 90.5 1.0 SG C:CYS1196 2.3 100.2 1.0 CE1 C:HIS1216 2.5 83.0 1.0 CB C:CYS1199 2.7 90.5 1.0 CG C:HIS1216 3.1 83.0 1.0 CG C:HIS1219 3.4 82.0 1.0 NE2 C:HIS1219 3.5 82.0 1.0 NE2 C:HIS1216 3.6 83.0 1.0 CB C:CYS1196 3.7 100.2 1.0 CB C:HIS1216 3.8 83.0 1.0 CD2 C:HIS1216 3.9 83.0 1.0 CA C:CYS1199 4.0 90.5 1.0 CD2 C:HIS1219 4.1 82.0 1.0 N C:CYS1199 4.1 90.5 1.0 CA C:HIS1216 4.2 83.0 1.0 CB C:HIS1219 4.3 82.0 1.0 SG C:CYS1238 4.3 97.1 1.0 CB C:CYS1238 4.6 97.1 1.0 CD1 C:LEU1201 4.6 95.8 1.0 O C:CYS1215 4.8 82.3 1.0 N C:HIS1216 5.0 83.0 1.0

Zinc binding site 10 out of 12 in the Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Structure of the Human UBR5 Hect-Type E3 Ubiquitin Ligase in A Tetrameric Form within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn2801 b:88.6 occ:1.00 SG D:CYS1179 2.3 101.7 1.0 SG D:CYS1232 2.3 100.1 1.0 SG D:CYS1208 2.3 96.9 1.0 SG D:CYS1211 2.3 99.8 1.0 CB D:CYS1211 2.4 99.8 1.0 CB D:CYS1179 3.4 101.7 1.0 CB D:CYS1232 3.5 100.1 1.0 CA D:CYS1211 3.7 99.8 1.0 CB D:CYS1208 3.8 96.9 1.0 N D:SER1180 3.9 101.7 1.0 N D:CYS1211 4.1 99.8 1.0 CA D:CYS1179 4.2 101.7 1.0 N D:PHE1181 4.2 100.5 1.0 N D:CYS1208 4.3 96.9 1.0 ZN D:ZN2802 4.3 127.7 1.0 CB D:CYS1234 4.4 101.9 1.0 C D:CYS1179 4.4 101.7 1.0 CB D:PHE1181 4.7 100.5 1.0 CA D:CYS1208 4.7 96.9 1.0 CA D:SER1180 4.8 101.7 1.0 CB D:SER1180 4.8 101.7 1.0 CA D:CYS1232 4.9 100.1 1.0 C D:CYS1211 4.9 99.8 1.0

F.Wang, Q.He, W.Zhan, Z.Yu, E.Finkin-Groner, X.Ma, G.Lin, H.Li. Structure of the Human UBR5 E3 Ubiquitin Ligase Structure 2023.
ISSN: ISSN 0969-2126
DOI: 10.1016/J.STR.2023.03.010