Ubiquitin protein ligase

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**[[2nsq]] – hUPL C2 domain <br />
**[[2nsq]] – hUPL C2 domain <br />
**[[2mpt]] – hUPL WW3+PY domain - NMR<br />
**[[2mpt]] – hUPL WW3+PY domain - NMR<br />
-
**[[4y07]] – hUPL WWP2 domain <br />
 
-
**[[2op7]] – hUPL WW4 domain - NMR<br />
 
-
**[[5tj8]], [[5tjq]], [[5tj7]] – hUPL WW2+WW3+linker+HECT domain <br />
 
**[[5hpk]] – hUPL HECT domain + ubiquitin <br />
**[[5hpk]] – hUPL HECT domain + ubiquitin <br />
-
**[[5hpt]] – hUPL HECT domain + ubiquitin + ubiquitin-conjugating enzyme L3<br />
 
**[[3jvz]], [[3jw0]] – hUPL HECT domain + ubiquitin + ubiquitin-conjugating enzyme D2<br />
**[[3jvz]], [[3jw0]] – hUPL HECT domain + ubiquitin + ubiquitin-conjugating enzyme D2<br />
-
**[[2ltx]], [[2lty]],[[2lb2]] – hUPL WW2 domain + peptide - NMR <br />
+
**[[2lty]],[[2lb2]] – hUPL WW2 domain + peptide - NMR <br />
**[[2laj]] – hUPL WW3 domain + peptide - NMR <br />
**[[2laj]] – hUPL WW3 domain + peptide - NMR <br />
 +
 +
*'''NEDD4-like Ubiquitin protein ligase WWP'''
 +
 +
**[[1nd7]] – hUPL 1 HECT domain <br />
 +
**[[2op7]] – hUPL 1 WW4 domain - NMR<br />
 +
**[[5hps]] – hUPL 1 HECT domain + ubiquitin<br />
 +
**[[5hpt]] – hUPL 1 HECT domain + ubiquitin + E2 L3<br />
 +
**[[4y07]] – hUPL 2 HECT domain <br />
 +
**[[5tj8]], [[5tjq]], [[5tj7]] – hUPL 2 WW2+WW3+linker+HECT domain <br />
*'''Ubiquitin protein ligase Praja'''
*'''Ubiquitin protein ligase Praja'''
Line 331: Line 336:
**[[2mre]] – hUPL UBZ domain + ubiquitin - NMR <br />
**[[2mre]] – hUPL UBZ domain + ubiquitin - NMR <br />
**[[2ybf]] – hUPL rad6-binding domain + ubiqitin-conjugating enzyme E2 B <br />
**[[2ybf]] – hUPL rad6-binding domain + ubiqitin-conjugating enzyme E2 B <br />
 +
 +
*'''Ubiquitin protein ligase RavN'''
 +
 +
**[[5miy]] – UPL - ''Legionella pneumophila'' <br />
*'''Ubiquitin protein ligase RBBP6'''
*'''Ubiquitin protein ligase RBBP6'''
Line 417: Line 426:
**[[2laz]], [[2lb0]], [[2lb1]], [[2ltx]] – hUPL 1 WW + peptide - NMR<br />
**[[2laz]], [[2lb0]], [[2lb1]], [[2ltx]] – hUPL 1 WW + peptide - NMR<br />
**[[3pyc]] – hUPL 1 C2 domain <br />
**[[3pyc]] – hUPL 1 C2 domain <br />
-
**[[2jqz]] – hUPL 2 - NMR <br />
+
**[[2jqz]] – hUPL 2 C2 domain - NMR <br />
**[[2kxq]] – hUPL 2 WW2 and WW3 + peptide<br />
**[[2kxq]] – hUPL 2 WW2 and WW3 + peptide<br />
Line 463: Line 472:
*'''Ubiquitin protein ligase UBR'''
*'''Ubiquitin protein ligase UBR'''
-
**[[3ny1]], [[3ny2]] – hUPL UBR-box <br />
+
**[[3ny1]], [[3ny2]] – hUPL 1 UBR-box <br />
-
**[[3pt3]] – hUPL C terminal <br />
+
**[[3ny3]] – hUPL 1 UBR-box + N-degron<br />
-
**[[3ny3]] – hUPL UBR-box + N-degron<br />
+
**[[5tdc]] – hUPL 1 UBR-box + peptide<br />
-
**[[3nih]], [[3nii]], [[3nij]], [[3nik]], [[3nil]], [[3nim]], [[3nin]] – yUPL UBR-box + peptide <br />
+
**[[3nih]], [[3nii]], [[3nij]], [[3nik]], [[3nil]], [[3nim]], [[3nin]] – yUPL 1 UBR-box + peptide <br />
-
**[[3nis]], [[3nit]] – yUPL UBR-box <br />
+
**[[3nis]], [[3nit]] – yUPL 1 UBR-box <br />
-
**[[3ntw]] – rUPL MLLE domain + peptide <br />
+
**[[5um3]] – hUPL 2 UBR-box (mutant)<br />
 +
**[[5tda]] – hUPL 2 UBR-box + N-degron<br />
 +
**[[5tdd]], [[5tdb]] – hUPL 2 UBR-box + peptide<br />
 +
**[[3pt3]] – hUPL 5 C terminal <br />
 +
**[[3ntw]] – rUPL 5 MLLE domain + peptide <br />
*'''Ubiquitin protein ligase UHRF (Np95)'''
*'''Ubiquitin protein ligase UHRF (Np95)'''
Line 474: Line 487:
**[[3sox]], [[3zvz]] – hUPL 1 PHD finger <br />
**[[3sox]], [[3zvz]] – hUPL 1 PHD finger <br />
**[[2lgl]] – hUPL 1 PHD finger - NMR <br />
**[[2lgl]] – hUPL 1 PHD finger - NMR <br />
 +
**[[3db4]], [[4qqd]], [[6b9m]] – hUPL 1 TUDOR domain <br />
 +
**[[3fl2]] – hUPL 1 RING domain <br />
 +
**[[3bi7]], [[2pb7]], [[3dwh]] – hUPL 1 SRA domain <br />
 +
**[[2zkg]] – mUPL 1 SRA domain <br />
 +
**[[3oln]] – hUPL 2 SRA domain <br />
**[[2e6s]] – hUPL 2 PHD finger - NMR <br />
**[[2e6s]] – hUPL 2 PHD finger - NMR <br />
-
**[[3zvy]] – hUPL 1 PHD finger + histone H3 peptide<br />
 
-
**[[3bi7]], [[2pb7]], [[2zkg]], [[3dwh]] – hUPL 1 SRA domain <br />
 
-
**[[3oln]] – hUPL 2 SRA domain <br />
 
-
**[[3db4]], [[4qqd]] – hUPL 1 TUDOR domain <br />
 
-
**[[3fl2]] – hUPL 1 RING domain <br />
 
**[[4tvr]] – hUPL 2 TUDOR + PHD domains <br />
**[[4tvr]] – hUPL 2 TUDOR + PHD domains <br />
-
**[[5iay]] – hUPL 1 tandem TUDOR domains + spacer - NMR <br />
 
*Ubiquitin protein ligase UHRF complex
*Ubiquitin protein ligase UHRF complex
**[[3clz]], [[2zkd]], [[2zke]], [[2zkf]] – hUPL 1 SRA domain + DNA<br />
**[[3clz]], [[2zkd]], [[2zke]], [[2zkf]] – hUPL 1 SRA domain + DNA<br />
-
**[[4pw5]], [[4pw6]], [[4pw7]] – hUPL 2 SRA domain + DNA<br />
 
**[[2zo0]], [[2zo1]], [[2zo2]], [[3f8i]], [[3f8j]], [[3fde]] – mUPL 1 SRA domain + DNA<br />
**[[2zo0]], [[2zo1]], [[2zo2]], [[3f8i]], [[3f8j]], [[3fde]] – mUPL 1 SRA domain + DNA<br />
-
**[[3sou]], [[3sow]], [[3shb]], [[2lgg]], [[3t6r]], [[3ask]], [[3asl]], [[4gy5]] – hUPL 1 PHD finger + histone H3 peptide<br />
+
**[[3sou]], [[3sow]], [[3shb]], [[2lgg]], [[3t6r]], [[3ask]], [[3asl]], [[4gy5]], [[3zvy]] – hUPL 1 PHD finger + histone H3 peptide<br />
**[[2lgk]] – hUPL 1 PHD finger + histone H3 peptide - NMR<br />
**[[2lgk]] – hUPL 1 PHD finger + histone H3 peptide - NMR<br />
**[[3db3]] – hUPL 1 TUDOR domain + histone H3 peptide<br />
**[[3db3]] – hUPL 1 TUDOR domain + histone H3 peptide<br />
**[[2l3r]] – hUPL 1 TUDOR domain + histone H3 peptide - NMR<br />
**[[2l3r]] – hUPL 1 TUDOR domain + histone H3 peptide - NMR<br />
 +
**[[5iay]] – hUPL 1 tandem TUDOR domains + spacer peptide - NMR <br />
 +
**[[5xpi]], [[4qqd]] – hUPL 1 TUDOR domain + inhibitor<br />
 +
**[[4pw5]], [[4pw6]], [[4pw7]] – hUPL 2 SRA domain + DNA<br />
-
*'''Ubiquitin protein ligase WWP1'''
+
*'''Ubiquitin protein ligase XIAP or baculoviral IAP repeat containing protein 4''' Domains: BIR1 10-99; BIR2 152-236; BIR3 249-354; UBA 357-449; RING 429-497
-
 
+
-
**[[2jqz]] – hUPL WW4 domain - NMR <br />
+
-
 
+
-
*'''Ubiquitin protein ligase XIAP'''
+
-
 
+
-
*Ubiquitin protein ligase XIAP BIR-1 domain
+
-
 
+
-
**[[2poi]], [[2qra]], [[4oxc]] – hXIAP – human <BR />
+
-
**[[2pop]] – hXIAP + TAB1 <BR />
+
-
 
+
-
*Ubiquitin protein ligase XIAP BIR-2 domain
+
-
 
+
-
**[[1c9q]] – hXIAP (mutant) – NMR <BR />
+
-
**[[4j3y]] – hXIAP (mutant) <BR />
+
-
**[[4j44]], [[4j45]], [[4j46]], [[4j47]], [[4j48]] - hXIAP (mutant) + peptide<BR />
+
-
**[[1i3o]] – hXIAP (mutant) + caspase-3 <BR />
+
-
**[[1i4o]], [[1kmc]], [[1i51]] – hXIAP + caspase-7 <BR />
+
-
**[[4kmp]], [[4wvs]], [[4wvt]], [[4wvu]] - hXIAP + inhibitor<BR />
+
-
**[[4kju]], [[4kjv]] - hXIAP (mutant) + inhibitor<BR />
+
-
**[[3uw5]] – hXIAP residues 63-179 (mutant) + GDC0152 + inhibitor<br /> <BR />
+
-
 
+
-
*Ubiquitin protein ligase XIAP BIR-3 domain
+
-
 
+
-
**[[1f9x]] – hXIAP – NMR <BR />
+
-
**[[1g3f]] – hXIAP + Smac peptide – NMR <BR />
+
-
**[[2opz]] – hXIAP + Smac peptide <BR />
+
-
**[[2opy]], [[2vsl]], [[3clx]], [[3cm2]], [[3cm7]], [[2jk7]], [[3eyl]], [[3g76]], [[4ec4]] – hXIAP + Smac mimic <BR />
+
-
**[[1g73]] – hXIAP + Smac <BR />
+
-
**[[1nw9]] – hXIAP + caspase-9 <BR />
+
-
**[[1tfq]], [[1tft]] – hXIAP + inhibitor - NMR <BR />
+
-
**[[3hl5]], [[4hy0]], [[5c0k]], [[5c0l]], [[5c3h]], [[5c3k]], [[5c7a]], [[5c7b]], [[5c7c]], [[5c7d]], [[5c83]], [[5c84]] – hXIAP + inhibitor <BR />
+
-
**[[3uw4]] – hXIAP (mutant) + peptide + inhibitor <BR />
+
-
 
+
-
*Ubiquitin protein ligase XIAP UBA domain
+
-
 
+
-
**[[2kna]] – hXIAP – NMR <BR />
+
-
 
+
-
*Ubiquitin protein ligase XIAP RING domain
+
-
**[[4ic2]] – hXIAP <BR />
+
**[[4oxc]] – hXIAP BIR1 domain <BR />
-
**[[2ecg]] – hXIAP – NMR <BR />
+
**[[4mtz]] – hXIAP BIR1 domain + inhibitor <BR />
-
**[[4ic3]] – hXIAP (mutant) <BR />
+
**[[2pop]] – hXIAP BIR1 domain + TAB1 <BR />
 +
**[[3uw5]] - hXIAP residues 63-179 (mutant) + peptide<BR />
 +
**[[4j3y]] – hXIAP BIR2 domain (mutant) <BR />
 +
**[[4j44]], [[4j45]], [[4j46]], [[4j47]], [[4j48]] - hXIAP BIR2 domain (mutant) + peptide<BR />
 +
**[[4kju]], [[4kjv]], [[4wvs]], [[4wvt]], [[4wvu]], [[4kjv]] - hXIAP BIR2 domain (mutant) + inhibitor<BR />
 +
**[[1f9x]] – hXIAP BIR3 domain – NMR <BR />>
 +
**[[4hy0]], [[5c0k]], [[5c0l]], [[5c3h]], [[5c3k]], [[5c7a]], [[5c7b]], [[5c7c]], [[5c7d]], [[5c83]], [[5c84]], [[4kmp]], [[4wvs]], [[4wvt]], [[4wvu]], [[5oqm]], [[6h6q]], [[6h6r]], [[3hl5]], [[4hy0]] – hXIAP BIR3 domain + inhibitor <BR />
 +
**[[5m6e]], [[5m6f]], [[5m6h]], [[5m6l]], [[5m6m]], [[5m6n]] - hXIAP BIR3 domain (mutant) + inhibitor<BR />
 +
**[[2jk7]], [[2vsl]], [[3g76]], [[4ec4]], [[3clx]], [[3cm2]], [[3cm7]], [[3eyl]], [[6ey2]] – hXIAP BIR3 domain + Smac mimetic <BR />
 +
**[[3uw4]] - hXIAP BIR3 domain (mutant) + peptide<BR />
 +
**[[4ic2]] – hXIAP RING domain <BR />
 +
**[[4ic3]] – hXIAP RING domain (mutant) <BR />
 +
**[[5o6t]] – hXIAP RING domain + diubiquitin <BR />
 +
**[[2kna]] – hXIAP UBA domain - NMR <BR />
-
*'''Ubiquitin protein ligase ZNRF3'''
+
*'''Ubiquitin protein ligase ZNRF'''
-
**[[4c84]], [[4c85]], [[4c86]], [[4c8a]], [[4c8c]], [[4c8f]] – zUPL ectodomain – zebra fish <br />
+
**[[5ywr]] – hUPL 1 RING domain + E2 N <BR />
-
**[[4c8p]] – zUPL ectodomain (mutant) <br />
+
**[[4c84]], [[4c85]], [[4c86]], [[4c8a]], [[4c8c]], [[4c8f]] – zUPL 3 ectodomain – zebra fish <br />
-
**[[4c8t]], [[4c8u]] – fUPL ectodomain – frog <br />
+
**[[4c8p]] – zUPL 3 ectodomain (mutant) <br />
-
**[[4cdj]] – mUPL ectodomain <br />
+
**[[4c8t]], [[4c8u]] – fUPL 3 ectodomain – frog <br />
-
**[[4c99]], [[4c9a]], [[4c9e]], [[4c9r]], [[4c9u]], [[4cdk]] – mUPL ectodomain + R-spondin <br />
+
**[[4cdj]] – mUPL 3 ectodomain <br />
-
**[[4ufs]] – hUPL ectodomain + R-spondin + LGR5 <br />
+
**[[4c99]], [[4c9a]], [[4c9e]], [[4c9r]], [[4c9u]], [[4cdk]] – mUPL 3 ectodomain + R-spondin <br />
 +
**[[4ufs]] – hUPL 3 ectodomain + R-spondin + LGR5 <br />
*'''Ubiquitin protein ligase ZFP91'''
*'''Ubiquitin protein ligase ZFP91'''

Revision as of 18:31, 4 October 2018

Human UPL HOIP (magenta) complex with ubiquitin (green), imidazole and Zn+2 ion (grey) 4ljo

Drag the structure with the mouse to rotate

3D Structures of ubiquitin protein ligase

Updated on 04-October-2018

References

  1. ↑ Ardley HC, Robinson PA. E3 ubiquitin ligases. Essays Biochem. 2005;41:15-30. PMID:16250895 doi:http://dx.doi.org/10.1042/EB0410015
  2. ↑ Sakemi R, Yano H, Ogasawara S, Akiba J, Nakashima O, Fukahori S, Sata M, Kojiro M. X-linked inhibitor of apoptosis (XIAP) and XIAP-associated factor-1 expressions and their relationship to apoptosis in human hepatocellular carcinoma and non-cancerous liver tissues. Oncol Rep. 2007 Jul;18(1):65-70. PMID:17549347
  3. ↑ Aguilar C, Lenoir C, Lambert N, Begue B, Brousse N, Canioni D, Berrebi D, Roy M, Gerart S, Chapel H, Schwerd T, Siproudhis L, Schappi M, Al-Ahmari A, Mori M, Yamaide A, Galicier L, Neven B, Routes J, Uhlig HH, Koletzko S, Patel S, Kanegane H, Picard C, Fischer A, Bensussan NC, Ruemmele F, Hugot JP, Latour S. Characterization of Crohn disease in X-linked inhibitor of apoptosis-deficient male patients and female symptomatic carriers. J Allergy Clin Immunol. 2014 Nov;134(5):1131-41.e9. doi:, 10.1016/j.jaci.2014.04.031. Epub 2014 Jun 15. PMID:24942515 doi:http://dx.doi.org/10.1016/j.jaci.2014.04.031
  4. ↑ Ardley HC, Robinson PA. The role of ubiquitin-protein ligases in neurodegenerative disease. Neurodegener Dis. 2004;1(2-3):71-87. PMID:16908979 doi:http://dx.doi.org/10.1159/000080048
  5. ↑ Xu G, Jiang X, Jaffrey SR. A mental retardation-linked nonsense mutation in cereblon is rescued by proteasome inhibition. J Biol Chem. 2013 Oct 11;288(41):29573-85. doi: 10.1074/jbc.M113.472092. Epub, 2013 Aug 27. PMID:23983124 doi:http://dx.doi.org/10.1074/jbc.M113.472092
  6. ↑ Lu G, Middleton RE, Sun H, Naniong M, Ott CJ, Mitsiades CS, Wong KK, Bradner JE, Kaelin WG Jr. The myeloma drug lenalidomide promotes the cereblon-dependent destruction of Ikaros proteins. Science. 2014 Jan 17;343(6168):305-9. doi: 10.1126/science.1244917. Epub 2013 Nov, 29. PMID:24292623 doi:http://dx.doi.org/10.1126/science.1244917
  7. ↑ Stieglitz B, Rana RR, Koliopoulos MG, Morris-Davies AC, Schaeffer V, Christodoulou E, Howell S, Brown NR, Dikic I, Rittinger K. Structural basis for ligase-specific conjugation of linear ubiquitin chains by HOIP. Nature. 2013 Oct 20. doi: 10.1038/nature12638. PMID:24141947 doi:http://dx.doi.org/10.1038/nature12638
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