Ubiquitin protein ligase

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<StructureSection load='' size='350' side='right' caption='Human UPL HOIP (magenta) complex with ubiquitin (green), imidazole and Zn+2 ion (grey) [[4ljo]]' scene='53/537519/Cv/1' >
<StructureSection load='' size='350' side='right' caption='Human UPL HOIP (magenta) complex with ubiquitin (green), imidazole and Zn+2 ion (grey) [[4ljo]]' scene='53/537519/Cv/1' >
== Function ==
== Function ==
-
'''Ubiquitin-protein ligase''' (UPL) ('''E3''') or '''E3 ubiquitin-protein ligase''' in combination with ubiquitin-conjugating enzyme (E2) causes the attachment of ubiquitin to lysine in a target protein<ref>PMID:16250895</ref>. '''UPL XIAP''' or '''X-linked Inhibitor of Apoptosis Protein''' stops apoptosis induced by viral infection or by overproduction of caspases. UPL XIAP binds caspase-3, -7 and -9<ref>PMID:17549347</ref>. UPL XIAP is inhibited by Smac – a death signaling protein.
+
'''Ubiquitin-protein ligase''' (UPL) ('''E3''') or '''E3 ubiquitin-protein ligase''' in combination with ubiquitin-conjugating enzyme (E2) causes the attachment of ubiquitin to lysine in a target protein<ref>PMID:16250895</ref>.
-
 
+
*'''UPL XIAP''' or '''X-linked Inhibitor of Apoptosis Protein''' stops apoptosis induced by viral infection or by overproduction of caspases. UPL XIAP binds caspase-3, -7 and -9<ref>PMID:17549347</ref>. UPL XIAP is inhibited by Smac – a death signaling protein.
-
For '''E3 ubiquitin-protein ligase parkin''' see [[Parkin]].
+
*'''RING-type E3 ubiquitin transferase''' are E3s which do not have Zn+2 coordination<ref>PMID:23747565</ref>.
 +
*'''HOIL-1''' or '''RanBP-type and C3HC4-type zinc finger-containing protein 1''' is an atypical E3 ligase which forms ester bonds between ubiquitin and Ser/Thr residues in proteins<ref>PMID:33932090</ref>.
 +
*'''NEDD4-like Ubiquitin protein ligase WWP''' see [[WWP2]].
 +
Examples of E3 ubiquitin-protein ligases include [[Parkin]]
== Disease ==
== Disease ==
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== Relevance ==
== Relevance ==
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Overexpression of UPL XIAP functions as tumor marker. UPL '''cereblon''' is inhibited by thalidomide<ref>PMID:24292623</ref>.
+
Overexpression of UPL XIAP functions as tumor marker. UPL '''cereblon''' is inhibited by thalidomide<ref>PMID:24292623</ref> and [[Lenalidomide]].
== Structural highlights ==
== Structural highlights ==
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*[[TIR1 ubiquitin ligase]]<br />
*[[TIR1 ubiquitin ligase]]<br />
*[[Herbicide 2,4-D bound to TIR1 Ubiquitin Ligase]].
*[[Herbicide 2,4-D bound to TIR1 Ubiquitin Ligase]].
-
</StructureSection>
 
== 3D Structures of ubiquitin protein ligase==
== 3D Structures of ubiquitin protein ligase==
-
+
[[Ubiquitin protein ligase 3D structures]]
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
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{{#tree:id=OrganizedByTopic|openlevels=0|
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*'''Ubiquitin protein ligase AMFR'''
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</StructureSection>
-
 
+
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**[[4g3o]] – hUPL CUE domain - human<br />
+
-
**[[2lvn]] – hUPL CUE domain - NMR<br />
+
-
**[[2lxh]] – hUPL RING domain - NMR<br />
+
-
**[[2lvo]], [[2lvp]], [[2lvq]] – hUPL CUE domain + ubiquitin - NMR<br />
+
-
**[[2lxp]] – hUPL RING+G2BR domains + E2 G2 - NMR<br />
+
-
**[[4lad]] – hUPL RING domain (mutant) + E2 G2 <br />
+
-
 
+
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*'''Ubiquitin protein ligase ARIH1''' Domains: catalytic 325-396
+
-
 
+
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**[[4kbl]], [[4kc9]] – hUPL<br />
+
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**[[2m9y]] – hUPL catalytic domain - NMR<br />
+
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**[[5udh]], [[5tte]] – hUPL + ubiqitin-conjugating enzyme E2 L3 + ubiquitin<br />
+
-
 
+
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*'''Ubiquitin protein ligase Arkadia'''
+
-
 
+
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**[[2kiz]] – hUPL RING domain - NMR<br />
+
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**[[5lg0]], [[5lg7]] – hUPL RING domain (mutant) - NMR<br />
+
-
 
+
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*'''Ubiquitin protein ligase Bre1'''
+
-
 
+
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**[[5trb]] – hUPL RNF20 domain<br />
+
-
**[[4r7e]] – hUPL RING domain<br />
+
-
 
+
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*'''Ubiquitin protein ligase cereblon'''
+
-
 
+
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**[[5v3o]] – hCRBN + DNA damage-binding protein <br />
+
-
**[[5hxb]] – hCRBN + DNA damage-binding protein + eukaryotic peptide chain release factor<br />
+
-
**[[5fqd]] – hCRBN + DNA damage-binding protein + casein kinase I + lenalidomide<br />
+
-
**[[4tz4]] – hCRBN + DNA damage-binding protein + lenalidomide<br />
+
-
**[[6bnb]], [[6bn7]], [[6bn8]], [[6bn9]], [[6boy]] – hCRBN + DNA damage-binding protein + bromodomain-containing protein<br />
+
-
**[[3wx1]], [[3wx2]] – mCRBN thalidomide-binding domain - mouse<br />
+
-
**[[4tzc]], [[5yiz]], [[5yj0]], [[5yj1]] – mCRBN thalidomide-binding domain + thalidomide<br />
+
-
**[[4tzu]] – mCRBN thalidomide-binding domain + pomalidomide<br />
+
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**[[4ci1]] – cCRBN + DNA damage-binding protein + thalidomide - chicken<br />
+
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**[[4ci2]] – cCRBN + DNA damage-binding protein + lenalidomide<br />
+
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**[[4ci3]] – cCRBN + DNA damage-binding protein + pomalidomide<br />
+
-
**[[5ami]] – MgCRBN 4 – ''Magnetospirillum griphyswaldense''<br />
+
-
**[[5amh]], [[5maj]], [[5amk]], [[4v2r]] – MgCer 4 + thalidomide<br />
+
-
**[[4v32]] – MgCRBN 4 (mutant) + thalidomide<br />
+
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**[[4v2z]], [[4v30]], [[6r0c]], [[8r0s]], [[6r0u]], [[6r0v]], [[6r1d]] – MgCRBN 4 + thalidomide derivative<br />
+
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**[[4v31]] – MgCRBN 4 + deoxyuridine<br />
+
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**[[6r11]], [[6r13]], [[6r18]], [[6r19]], [[6r1a]], [[6r1c]], [[6r1k]], [[6r1w]], [[6r1x]] – MgCRBN 4 + effector<br />
+
-
 
+
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*'''Ubiquitin protein ligase CHFR'''
+
-
 
+
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**[[2xoc]], [[2xoy]], [[2xoz]] – hUPL C terminal + nucleotide<br />
+
-
**[[2xp0]] – hUPL C terminal <br />
+
-
 
+
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*'''Ubiquitin protein ligase Cbl''' Domains:Tyr kinase-binding (TKB) 25-351;RING 358-437;WW3 399-432;catalytic 495-852; UBA 924-973-432
+
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+
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**[[2y1m]] – hUPL <br />
+
-
**[[5j3x]] – hUPL (mutant)<br />
+
-
**[[1d5f]] – hUPL catalytic domain <br />
+
-
**[[2dk3]] – hUPL catalytic domain - NMR<br />
+
-
**[[1yiu]] – hUPL WW3 domain - NMR<br />
+
-
**[[2k4d]] – hUPL RING domain<br />
+
-
**[[2ldr]] – hUPL RING domain - NMR <br />
+
-
**[[2oo9]], [[2ooa]], [[2oob]] – hUPL UBA domain <br />
+
-
**[[2do6]], [[2ekk]], [[2jnh]], [[2juj]] – hUPL UBA domain - NMR<br />
+
-
**[[3vgo]] – hUPL N terminal <br />
+
-
**[[2kr1]] – hUPL N terminal - NMR <br />
+
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**[[2d9s]] – mUPL UBA domain – mouse - NMR<br />
+
-
**[[6bk5]] – UPL - ''Salpingoeca rosetta'' <br />
+
-
 
+
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*Ubiquitin protein ligase Cbl complex
+
-
 
+
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**[[1yvh]] – hUPL TKB domain + APS adaptor protein<br />
+
-
**[[3bum]], [[3bun]], [[3buo]], [[3buw]], [[3bux]], [[3ob1]], [[3ob2]], [[3rlf]], [[3pfv]], [[2k4d]], [[4gpl]] – hUPL TKB domain + peptide <br />
+
-
**[[2y1n]] – hUPL residues 47-435 + ZAP peptide <br />
+
-
**[[5o76]] – hUPL residues 47-435 (mutant) + ZAP peptide <br />
+
-
**[[4a49]] – hUPL RING domain + ubiquitin conjugating enzyme E2 <br />
+
-
**[[5axi]] – mUPL-B TKB domain + cblin <br />
+
-
 
+
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*'''Ubiquitin protein ligase CHIP'''
+
-
 
+
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**[[4kbq]] – hUPL TPR domain + Hsc70<br />
+
-
 
+
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*'''Ubiquitin protein ligase CNOT4'''
+
-
 
+
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**[[2cpi]] – mUPL RNA recognition motif - NMR <br />
+
-
 
+
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*'''Ubiquitin protein ligase COP1'''
+
-
 
+
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**[[5hqg]] - hUPL WD40 domain<br />
+
-
**[[5igq]] – hUPL WD40 domain + Trib1 peptide<br />
+
-
**[[5igo]] – AtUPL WD40 domain + Trib1 peptide - ''Arabidopsis thaliana'' <br />
+
-
**[[5kwn]], [[6qto]], [[6qtt]],[[6qtv]], [[6qtx]] – AtUPL WD40 domain + transcription factor peptide <br />
+
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**[[6qtr]] – AtUPL WD40 domain (mutant) + transcription factor peptide <br />
+
-
**[[6qto]], [[6qtw]] – AtUPL WD40 domain + photoreceptor peptide<br />
+
-
**[[6qts]] – AtUPL WD40 domain (mutant) + photoreceptor peptide<br />
+
-
**[[6qtu]] – AtUPL WD40 domain + BBX peptide<br />
+
-
 
+
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*'''Ubiquitin protein ligase DOA10'''
+
-
 
+
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**[[2m6m]] – hUPL RING domain - NMR<br />
+
-
 
+
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*'''Ubiquitin protein ligase DTX3L'''
+
-
 
+
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**[[3pg6]] – hUPL C terminal <br />
+
-
 
+
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*'''Ubiquitin protein ligase E3'''
+
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+
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**[[2y1m]] – hUPL - human<br />
+
-
**[[1d5f]] – hUPL catalytic domain <br />
+
-
**[[2dk3]] – hUPL catalytic domain - NMR<br />
+
-
**[[1yiu]] – hUPL WW3 domain - NMR<br />
+
-
**[[2oo9]], [[2ooa]], [[2oob]] – hUPL UBA domain <br />
+
-
**[[2do6]], [[2ekk]], [[2jnh]], [[2juj]] – hUPL UBA domain - NMR<br />
+
-
**[[3vgo]] – hUPL N terminal <br />
+
-
**[[2kr1]] – hUPL N terminal - NMR <br />
+
-
**[[2ldr]] – hUPL helix-RING domain - NMR <br />
+
-
**[[2d9s]] – mUPL UBA domain - NMR<br />
+
-
 
+
-
*Ubiquitin protein ligase E3 complex
+
-
 
+
-
**[[1yvh]] – hUPL TKB domain + APS adaptor protein<br />
+
-
**[[3bum]], [[3bun]], [[3buo]], [[3buw]], [[3bux]], [[3ob1]], [[3ob2]], [[3rlf]], [[3pfv]] – hUPL TKB domain + peptide <br />
+
-
**[[2y1n]] – hUPL residues 47-435 + ZAP peptide <br />
+
-
**[[4a4b]], [[4a4c]] – hUPL TKB domain (mutant) + ZAP peptide + ubiquitin conjugating enzyme E2 D2<br />
+
-
**[[1c4z]] – hUPL catalytic domain + ubiquitin conjugating enzyme E2 <br />
+
-
**[[4a49]] – hUPL residues 354-435 + ubiquitin conjugating enzyme E2 D2 <br />
+
-
 
+
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*'''Ubiquitin protein ligase EDD1'''
+
-
 
+
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**[[2qho]] – hUPL UBA domain + ubiquitin <br />
+
-
 
+
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*'''Ubiquitin protein ligase FANCL'''
+
-
 
+
-
**[[3zqs]] – hUPL residues 109-294<br />
+
-
**[[4ccg]] – hUPL RING domain + E2 T<br />
+
-
**[[3k1l]] – UPL - ''Drosophila melanogaster''<br />
+
-
 
+
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*'''Ubiquitin protein ligase HAKAI'''
+
-
 
+
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**[[3vk6]] – mUPL phosphotyrosine-binding domain<br />
+
-
**[[2mq1]] – mUPL phosphotyrosine-binding domain - NMR<br />
+
-
 
+
-
*'''Ubiquitin protein ligase HECTD1''' Domains: CHP 1268-1340;helical bundle 1879-1966;
+
-
 
+
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**[[3dkm]] – hUPL CPH domain <br />
+
-
**[[2dk3]] – hUPL CHP domain - NMR<br />
+
-
**[[2lc3]] – hUPL helical bundle domain - NMR<br />
+
-
 
+
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*'''Ubiquitin protein ligase HECW'''
+
-
 
+
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**[[3l4h]] – hUPL 1 WW2 and helical box domains <br />
+
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**[[2lfe]] – hUPL 2 N terminal - NMR<br />
+
-
 
+
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*'''Ubiquitin protein ligase HERC'''
+
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+
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**[[4o2w]] – hUPL 1 3rd RCC1-like domain <br />
+
-
**[[4l1m]] – hUPL 2 1st RCC1-like domain <br />
+
-
 
+
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*'''Ubiquitin protein ligase HUWE1''' Domains: WWE 1611-1700; UBM1 2951-3003; HECT 4005-4374
+
-
 
+
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**[[6miw]] - hUPL WWE domain<br />
+
-
**[[6pfl]] - hUPL WWE domain + ADPR<br />
+
-
**[[3g1n]], [[5lp8]] – hUPL HECT domain <br />
+
-
**[[3h1d]] – hUPL HECT domain (mutant)<br />
+
-
**[[2mul]], [[2ekk]] – hUPL UBM1 domain - NMR <br />
+
-
**[[6fyh]] – hUPL residues 4255-4374 (mutant) + ubiquitin<br />
+
-
 
+
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*'''Ubiquitin protein ligase IPAH'''
+
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+
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**[[5b0n]], [[5bot]] – UPL LRR domain – ''Shigella flexneri'' <br />
+
-
 
+
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*'''Ubiquitin protein ligase ITCHY''' Domains: C2 1-155; WW3 282-320; WW4 324-363; HECT 524-903
+
-
 
+
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**[[5dws]], [[5cq2]], [[4rof]] – hUPL WW3 domain + TXNIP <br />
+
-
**[[5dzd]] – hUPL WW4 domain + TXNIP <br />
+
-
**[[3tug]] – hUPL HECT domain <br />
+
-
**[[5c7m]] – hUPL HECT domain + ubiquitin<br />
+
-
**[[2nq3]] – hUPL C2 domain <br />
+
-
**[[5xmc]] – mUPL <br />
+
-
**[[2dmv]], [[2kyk]] – mUPL WW2 domain - NMR <br />
+
-
**[[2joc]], [[1yiu]] – mUPL WW3 domain - NMR <br />
+
-
**[[2ysf]] – mUPL WW4 domain - NMR <br />
+
-
**[[2jo9]] – mUPL WW3 domain + Epstein-Barr virus peptide - NMR <br />
+
-
 
+
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*'''Ubiquitin protein ligase Listerin (Ltn1)'''
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-
 
+
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**[[5fg0]], [[5fg1]] – yUPL N-terminal domain <br />
+
-
 
+
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*'''Ubiquitin protein ligase LNX'''
+
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+
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**[[3b76]] – hUPL 3rd PDZ domain <br />
+
-
**[[5h7r]] – hUPL residues 11-138 <br />
+
-
**[[5h7s]] – hUPL residues 11-138 + ubiquitin conjugating enzyme E2 N + ubiquitin <br />
+
-
**[[3vqf]] – mUPL 2rd PDZ domain <br />
+
-
**[[3vqg]] – mUPL 2rd PDZ domain + peptide<br />
+
-
 
+
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*'''Ubiquitin protein ligase LUBX'''
+
-
 
+
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**[[4wz2]], [[4xi1]], [[4wz0]] – LpUPL (mutant) – ''Legionella pneumophila'' <br />
+
-
**[[4wz3]] – LpUPL + E2 D2<br />
+
-
 
+
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*'''Ubiquitin protein ligase MDM2''' see [[MDM2]]
+
-
 
+
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*'''Ubiquitin protein ligase MIB1'''
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+
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**[[4tse]], [[4xi6]] – hUPL MIND BOMB domain <br />
+
-
**[[4xi7]], [[4xib]] – hUPL MIND BOMB domain + peptide<br />
+
-
 
+
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*'''Ubiquitin protein ligase MID1'''
+
-
 
+
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**[[5im8]] – hUPL COS domain - NMR <br />
+
-
 
+
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*'''Ubiquitin protein ligase MSL-2'''
+
-
 
+
-
**[[4rkg]], [[4rkh]] – DmUPL CXC domain + DNA - ''Drosophila melanogaster'' <br />
+
-
 
+
-
*'''Ubiquitin protein ligase MYCBP2'''
+
-
 
+
-
**[[5o6c]] – hUPL residues 4379-4638 <br />
+
-
**[[3gbw]] – mUPL 1st PHR domain <br />
+
-
**[[3hwj]] – mUPL 2nd PHR domain <br />
+
-
 
+
-
*'''Ubiquitin protein ligase MYLIP''' Domains: FERM 1-344; F3ab 183-283; RING 369-445
+
-
 
+
-
**[[6qly]] – hUPL FERM domain <br />
+
-
**[[6qlz]] – hUPL F3ab domain <br />
+
-
**[[2yhn]] – hUPL RING domain <br />
+
-
**[[2yho]] – hUPL RING domain + ubiquitin-conjugating enzyme<br />
+
-
 
+
-
*'''Ubiquitin protein ligase NEDD4'''
+
-
 
+
-
**[[3b7y]] – hUPL C2 domain <br />
+
-
**[[2xbf]] – hUPL HECT domain <br />
+
-
**[[4be8]] – hUPL HECT domain (mutant) <br />
+
-
**[[4n7f]] – hUPL WW3 domain <br />
+
-
**[[1wr3]], [[1wr4]], [[1wr7]] – mUPL WW domain - NMR <br />
+
-
**[[2n8s]] – rUPL WW1 domain – rat - NMR <br />
+
-
**[[2n8u]] – rUPL WW2 domain - NMR <br />
+
-
**[[5aht]] – rUPL WW3 domain - NMR <br />
+
-
 
+
-
*Ubiquitin protein ligase NEDD4 complex
+
-
 
+
-
**[[2kpz]], [[2kq0]], [[2laj]], [[2ltz]], [[2m3o]] – hUPL WW3 domain + peptide - NMR <br />
+
-
**[[4n7h]] – hUPL WW3 domain + arrestin peptide <br />
+
-
**[[3m7f]] – hUPL C2 domain + growth factor receptor bound protein<br />
+
-
**[[5c91]] – hUPL HECT domain + inhibitor <br />
+
-
**[[2xbb]], [[5c7j]], [[5hpl]] – hUPL HECT domain + ubiquitin <br />
+
-
**[[4bbn]] – hUPL HECT domain (mutant) + polyubiquitin <br />
+
-
**[[1i5h]] – rUPL WW3 domain + amiloride-sensitive Na channel β subunit <br />
+
-
**[[2n8t]] – rUPL WW2 domain + peptide - NMR <br />
+
-
**[[2ez5]] – DmUPL WW3 domain + COMM LPSY peptide - NMR <br />
+
-
 
+
-
*'''Ubiquitin protein ligase NEDD4-like'''
+
-
 
+
-
**[[2oni]] – hUPL catalytic domain <br />
+
-
**[[2nsq]] – hUPL C2 domain <br />
+
-
**[[2mpt]] – hUPL WW3+PY domain - NMR<br />
+
-
**[[5hpk]] – hUPL HECT domain + ubiquitin <br />
+
-
**[[3jvz]], [[3jw0]] – hUPL HECT domain + ubiquitin + ubiquitin-conjugating enzyme D2<br />
+
-
**[[2lty]],[[2lb2]] – hUPL WW2 domain + peptide - NMR <br />
+
-
**[[2laj]] – hUPL WW3 domain + peptide - NMR <br />
+
-
 
+
-
*'''NEDD4-like Ubiquitin protein ligase WWP''' Domains: WW1 379-922; WW4 438-480; HECT 537-917
+
-
 
+
-
**[[1nd7]] – hUPL 1 HECT domain <br />
+
-
**[[6j1x]], [[6j1y]] – hUPL 1 WW1 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]], [[6j1z]] – hUPL 2 WW2+WW3+linker+HECT domain <br />
+
-
**[[6rss]] – hUPL 2 WW4 domain - NMR<br />
+
-
 
+
-
*'''Ubiquitin protein ligase Praja'''
+
-
 
+
-
**[[2l0b]] – hUPL RING-type zinc finger domain - NMR<br />
+
-
 
+
-
*'''Ubiquitin protein ligase PARKIN'''
+
-
 
+
-
**[[5c1z]], [[5c23]], [[6hue]] – hUPL <br />
+
-
**[[5c9v]] – hUPL (mutant)<br />
+
-
**[[2jmo]] – hUPL IBR domain - NMR <br />
+
-
**[[2m48]] – hUPL IBR+RING domain - NMR <br />
+
-
**[[5tr5]] – hUPL UBL domain - NMR <br />
+
-
**[[2zeq]] – hUPL ubiquitin-like domain <br />
+
-
**[[4bm9]], [[4i1h]] – hUPL catalytic domain <br />
+
-
**[[4i1f]] – hUPL catalytic domain (mutant)<br />
+
-
**[[5n2w]], [[6glc]], [[5n38]] – hUPL + polyubiquitin <br />
+
-
**[[6djw]] – hUPL + ubiquitin + E2<br />
+
-
**[[6djx]] – hUPL (mutant) + ubiquitin + E2<br />
+
-
**[[6n13]] – hUPL (mutant) + ubiquitin + E2 + phophoubiquitin - NMR<br />
+
-
**[[3b1l]] – mUPL ubiquitin-like domain <br />
+
-
**[[4k7d]] – rUPL C terminal domain <br />
+
-
**[[2knb]] – rUPL + endophilin - NMR <br />
+
-
**[[4k95]], [[4zyn]] – rUPL <br />
+
-
**[[4k7d]] – rUPL C terminal domain <br />
+
-
**[[2knb]] – rUPL + endophilin - NMR <br />
+
-
**[[5caw]] – UPL + ubiquitin – body louse<br />
+
-
 
+
-
*'''Ubiquitin protein ligase RAD18''' Domains: RING 1-99; UBZ 198-227; rad6-binding 340-366
+
-
 
+
-
**[[2y43]] – hUPL RING domain <br />
+
-
**[[2mrf]], [[5vf0]] – hUPL UBZ domain - NMR <br />
+
-
**[[2mre]] – hUPL UBZ domain + ubiquitin - NMR <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'''
+
-
 
+
-
**[[3ztg]] – hUPL RING domain - NMR <br />
+
-
 
+
-
*'''Ubiquitin protein ligase RBX'''
+
-
 
+
-
**[[2lgv]] – hUPL 1 (mutant) - NMR <br />
+
-
**[[3rtr]], [[4f52]] – hUPL 1 + cullin-1 <br />
+
-
**[[4a0k]], [[4a0c]] – hUPL 1 + cullin-4B + cullin-associated NEDD8-dissociated protein<br />
+
-
**[[4p5o]] – hUPL 1 + cullin-1 + Ubc12 + DCN1-like protein<br />
+
-
**[[5n4w]] – hUPL 1 + cullin-2 + elongin B + elongin C + VHL<br />
+
-
**[[4a0l]] – hUPL 1 + cullin-4B + DNA damage-binding protein + DNA<br />
+
-
 
+
-
*'''Ubiquitin protein ligase RFWD'''
+
-
 
+
-
**[[5hqg]] – hUPL 2 <br />
+
-
**[[6igq]] – hUPL 2 WD3-repeat domain + Trib peptide <br />
+
-
**[[6cvz]] – hUPL 3 WD3-repeat domain <br />
+
-
 
+
-
*'''Ubiquitin protein ligase RING2'''
+
-
 
+
-
**[[3h8h]] – hUPL C terminal <br />
+
-
**[[3gs2]] – hUPL C terminal + chromobox protein homolog<br />
+
-
**[[3ixs]] – hUPL C terminal (mutant) + RING1 and YY1-binding protein<br />
+
-
**[[3rpg]], [[4s3o]] – hUPL + polycomb complex protein BMI-1 + E2 D3 <br />
+
-
**[[4r8p]] – hUPL + polycomb complex protein BMI-1 + histones + DNA <br />
+
-
**[[2ckl]] – mUPL RING domain + polycomb group ring finger protein 4 <br />
+
-
**[[2h0d]] – mUPL RING domain + B lymphoma MO-MLV insertion region <br />
+
-
 
+
-
*'''Ubiquitin protein ligase RNF or ring finger protein''' Domains: PUB 1-184; RING 216-290; catalytic 853-1072;
+
-
 
+
-
**[[4ppe]], [[3ng2]] – hUPL 4 RING domain <br />
+
-
**[[4ap4]], [[5ait]], [[5aiu]] – hUPL 4 RING domain + E2 N + ubiquitin<br />
+
-
**[[2pie]] – hUPL 8 FHA domain <br />
+
-
**[[2csw]] – hUPL 8 FHA domain - NMR <br />
+
-
**[[4ayc]], [[4gb0]] – hUPL 8 RING domain <br />
+
-
**[[4orh]] – hUPL 8 residues 345-485 + E2 N <br />
+
-
**[[4whv]] – hUPL 8 residues 345-485 + ubiquitin + E2 N <br />
+
-
**[[5zc4]] – hUPL 13 RING domain <br />
+
-
**[[5d1k]], [[5d1l]], [[5d1m]] – hUPL 25 residues 126-258 + E2 D2 <br />
+
-
**[[4juy]], [[4oyj]], [[4p09]] – hUPL 31 PUB domain <br />
+
-
**[[4ljq]], [[6gzy]] – hUPL 31 catalytic domain <br />
+
-
**[[6sc6]] – hUPL 31 catalytic domain + antibody<br />
+
-
**[[6sc5]], [[6sc7]], [[6sc8]], [[6sc9]] – hUPL 31 catalytic domain + antibody + inhibitor<br />
+
-
**[[4ljo]] – hUPL 31 catalytic domain + ubiquitin<br />
+
-
**[[5edv]] – hUPL 31 catalytic domain + ubiquitin + E2<br />
+
-
**[[4ljp]] – hUPL 31 catalytic domain (mutant) + ubiquitin<br />
+
-
**[[4owf]] – hUPL 31 catalytic domain + nf-κ-B modulator<br />
+
-
**[[4oyk]], [[4p0b]] – hUPL 31 PUB domain + otulin<br />
+
-
**[[4p0a]] – hUPL 31 PUB domain + p97 peptide<br />
+
-
**[[5ljn]] – hUPL 31 PUB domain + SPATA2 peptide<br />
+
-
**[[5x0w]] – hUPL 31 residues 480-639 + Sharpin <br />
+
-
**[[5y3t]] – hUPL 31 residues 474-630 + Sharpin + HOIL-7 <br />
+
-
**[[5zbu]] – hUPL 31 RING domain (mutant) + ubiquitin-C + E2 D2<br />
+
-
**[[4v3k]], [[4v3l]] – hUPL 38 residues 439-515 + polyubiquitin-C + E2 D2<br />
+
-
**[[4kng]] – hUPL 43 PA domain + LGR5 + RSPO1<br />
+
-
**[[2ma6]] – hUPL 123 RING domain - NMR<br />
+
-
**[[5dka]] – hUPL 125 (mutant)<br />
+
-
**[[2n9o]] – hUPL 126 N-terminal - NMR<br />
+
-
**[[2n9p]] – hUPL 126 N-terminal + BAG6 ubiquitin-like domain - NMR<br />
+
-
**[[3icu]] – hUPL 128 protease-associated domain <br />
+
-
**[[3v3l]] – hUPL 146 WWE domain <br />
+
-
**[[5d0i]] – hUPL 165 residues 255-348 <br />
+
-
**[[5d0k]], [[5d0m]], [[5ulh]], [[5ulk]] – hUPL 165 residues 255-348 + ubiquitin + E2 D2 <br />
+
-
**[[3l11]], [[4gb0]] – hUPL 168 RING domain <br />
+
-
**[[5xis]], [[5ydk]] – hUPL 168 residues 110-188 + diubiquitin <br />
+
-
**[[5vey]] – hUPL 169 residues 653-708 + polyubiquitin + histone 2B - NMR<br />
+
-
**[[5zi6]] – hUPL 194 residues 605-659<br />
+
-
**[[2rsf]] – mUPL 146 WWE domain + ATP<br />
+
-
**[[4qpl]] – mUPL 146 RING+WWE domains + E2<br />
+
-
 
+
-
*'''Ubiquitin protein ligase RSP'''
+
-
 
+
-
**[[4lcd]] – hUPL 3 HECT + WW3 domains (mutant) + SNA3 peptide + ubiquitin <br />
+
-
**[[3olm]] – hUPL 5 HECT + WW3 domains + ubiquitin <br />
+
-
 
+
-
*'''Ubiquitin protein ligase SHPRH'''
+
-
 
+
-
**[[2m85]] – hUPL PHD domain - NMR<br />
+
-
**[[4qn1]] – hUPL residues 1000-1418<br />
+
-
 
+
-
*'''Ubiquitin protein ligase SIAH''' Domains: SINA 93-282
+
-
 
+
-
**[[4c9z]], [[4ca1]] – hUPL 1 SINA domain <br />
+
-
**[[2a25]] – hUPL 1 SINA domain + calcyclin-binding protein peptide <br />
+
-
**[[4x3g]], [[5wzz]] – hUPL 1 SINA domain + peptide <br />
+
-
**[[4i7b]], [[4i7d]] – hUPL 1 C terminal + phyllopod peptide <br />
+
-
**[[4i7c]] – hUPL 1 C terminal (mutant) + phyllopod pept
+
-
**[[5h9m]] – hUPL 2 SBD domain <br />
+
-
**[[2an6]] – mUPL 1 SINA domain + phyllopod peptide <br />
+
-
 
+
-
*'''Ubiquitin protein ligase SLRP'''
+
-
 
+
-
**[[4puf]] – SeUPL + thioredoxin - ''Salmonella enterica'' <br />
+
-
 
+
-
*'''Ubiquitin protein ligase SMURF'''
+
-
 
+
-
**[[2laz]], [[2lb0]], [[2lb1]], [[2ltx]] – hUPL 1 WW + peptide - NMR<br />
+
-
**[[3pyc]] – hUPL 1 C2 domain <br />
+
-
**[[2jqz]] – hUPL 2 C2 domain - NMR <br />
+
-
**[[2kxq]] – hUPL 2 WW2 and WW3 + peptide<br />
+
-
 
+
-
*'''Ubiquitin protein ligase SopA'''
+
-
 
+
-
**[[2qyu]], [[2qza]] – SeUPL residues 165-782 - ''Salmonella enterica'' <br />
+
-
**[[3sy2]] – SeUPL residues 165-782 + ubiquitin + ubiquitin-conjugating enzyme - ''Salmonella enterica'' <br />
+
-
**[[5jw7]] – SeUPL residues 163-425 + TRIM56 <br />
+
-
 
+
-
*'''Ubiquitin protein ligase SSPH1'''
+
-
 
+
-
**[[4nkh]] – SeUPL 21 LRR domain<br />
+
-
**[[4nkg]] – SeUPL 21 LRR domain + Ser/Thr protein kinase N1 peptide<br />
+
-
 
+
-
*'''Ubiquitin protein ligase TIR1'''
+
-
 
+
-
**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein <br />
+
-
**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein + herbicide<br />
+
-
 
+
-
*'''Ubiquitin protein ligase TRIM''' Domains RING 1-123; B2-box 117-161; coiled-coil 203-393; PRY-SPRY 249-442; PHD-bromo 882-1087
+
-
 
+
-
**[[6jbm]] – hUPL 14 PRY-SPRY domain <br />
+
-
**[[5olm]] – hUPL 21 residues 1-129<br />
+
-
**[[5jpx]] – hUPL 21 B2-Box domain - NMR <br />
+
-
**[[6s53]] – hUPL 21 RING domain + ubiquitin + E2 N <br />
+
-
**[[5vzv]] – hUPL 23 RING domain <br />
+
-
**[[5vzw]] – hUPL 23 RING domain + ubiquitin + E2 D2 <br />
+
-
**[[5eya]] – hUPL 25 RING domain + ubiquitin + E2 N <br />
+
-
**[[5fer]] – hUPL 25 RING domain + ribosomal protein S2 + E2 D1 <br />
+
-
**[[6flm]] – hUPL 25 PRY-SPRY domain <br />
+
-
**[[6fln]] – hUPL 25 PRY-SPRY + coiled-coil domains <br />
+
-
**[[4ltb]] – hUPL 25 coiled-coil <br />
+
-
**[[4cfg]] – hUPL 25 coiled-coil (mutant)<br />
+
-
**[[5nt2]], [[5nt1]] – hUPL 25 coiled-coil + nonstructural protein<br />
+
-
**[[6i9h]] – hUPL 28 RING domain - NMR <br />
+
-
**[[2yjs]], [[2ysl]] – hUPL 31 RING domain - NMR <br />
+
-
**[[5fey]] – hUPL 32 RING domain<br />
+
-
**[[2ct2]] – hUPL 32 RING domain - NMR<br />
+
-
**[[3u5m]] – hUPL 33 PHD+Bromo domains <br />
+
-
**[[3u5n]], [[3u5o]], [[3u5p]], [[5mr8]] – hUPL 33 PHD+Bromo domain + H3-histone peptide <br />
+
-
**[[3ddt]] – hUPL 37 B2-box <br />
+
-
**[[4m3l]] – hUPL 63 coiled-coil domain <br />
+
-
**[[4nqj]] – hUPL 69 coiled-coil domain <br />
+
-
**[[3kb5]] – hUPL 72 PRY-SPRY domain <br />
+
-
**[[2v0k]] – mUPL 21 PRY-SPRY domain <br />
+
-
**[[3zo0]] – mUPL 21 PRY-SPRY domain + IG γ-2A<br />
+
-
**[[4b8e]] – mUPL 25 PRY-SPRY domain <br />
+
-
 
+
-
*'''Ubiquitin protein ligase UBR'''
+
-
 
+
-
**[[3ny1]], [[3ny2]] – hUPL 1 UBR-box <br />
+
-
**[[3ny3]] – hUPL 1 UBR-box + N-degron<br />
+
-
**[[5tdc]] – hUPL 1 UBR-box + 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 />
+
-
**[[5vmd]] – hUPL 6 UBR-box <br />
+
-
**[[3ntw]] – rUPL 5 MLLE domain + peptide <br />
+
-
**[[3nis]], [[3nit]], [[6kgi]] – yUPL 1 UBR-box - yeast <br />
+
-
**[[3nih]], [[3nii]], [[3nij]], [[3nik]], [[3nil]], [[3nim]], [[3nin]] – yUPL 1 UBR-box + peptide<br />
+
-
 
+
-
*'''Ubiquitin protein ligase UHRF (Np95)'''
+
-
 
+
-
**[[3sox]], [[3zvz]] – hUPL 1 PHD finger <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 />
+
-
**[[3oln]] – hUPL 2 SRA domain <br />
+
-
**[[2e6s]] – hUPL 2 PHD finger - NMR <br />
+
-
**[[4tvr]] – hUPL 2 TUDOR + PHD domains <br />
+
-
**[[2zkg]] – mUPL 1 SRA domain <br />
+
-
 
+
-
*Ubiquitin protein ligase UHRF complex
+
-
 
+
-
**[[3clz]], [[2zkd]], [[2zke]], [[2zkf]] – hUPL 1 SRA domain + DNA<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 />
+
-
**[[3db3]] – hUPL 1 TUDOR domain + histone H3 peptide<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 />
+
-
**[[2zo0]], [[2zo1]], [[2zo2]], [[3f8i]], [[3f8j]], [[3fde]] – mUPL 1 SRA domain + DNA<br />
+
-
 
+
-
*'''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
+
-
 
+
-
**[[4oxc]] – hXIAP BIR1 domain <BR />
+
-
**[[4mtz]] – hXIAP BIR1 domain + inhibitor <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 ZNRF'''
+
-
 
+
-
**[[5ywr]] – hUPL 1 RING domain + E2 N <BR />
+
-
**[[4ufs]] – hUPL 3 ectodomain + R-spondin + LGR5 <br />
+
-
**[[4cdj]] – mUPL 3 ectodomain <br />
+
-
**[[4c99]], [[4c9a]], [[4c9e]], [[4c9r]], [[4c9u]], [[4cdk]] – mUPL 3 ectodomain + R-spondin <br />
+
-
**[[4c8t]], [[4c8u]] – fUPL 3 ectodomain – frog <br />
+
-
**[[4c84]], [[4c85]], [[4c86]], [[4c8a]], [[4c8c]], [[4c8f]] – zUPL 3 ectodomain – zebra fish <br />
+
-
**[[4c8p]] – zUPL 3 ectodomain (mutant) <br />
+
-
 
+
-
*'''Ubiquitin protein ligase ZFP91'''
+
-
 
+
-
**[[2m9a]] – hUPL residues 370-456 - NMR<br />
+
-
}}
 
==References==
==References==
<references />
<references />
[[Category:Topic Page]] + phosphoubiquitin
[[Category:Topic Page]] + phosphoubiquitin

Current revision

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

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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. ↑ Metzger MB, Pruneda JN, Klevit RE, Weissman AM. RING-type E3 ligases: master manipulators of E2 ubiquitin-conjugating enzymes and ubiquitination. Biochim Biophys Acta. 2014 Jan;1843(1):47-60. PMID:23747565 doi:10.1016/j.bbamcr.2013.05.026
  4. ↑ Petrova T, Zhang J, Nanda SK, Figueras-Vadillo C, Cohen P. HOIL-1-catalysed, ester-linked ubiquitylation restricts IL-18 signaling in cytotoxic T cells but promotes TLR signalling in macrophages. FEBS J. 2021 Oct;288(20):5909-5924. PMID:33932090 doi:10.1111/febs.15896
  5. ↑ 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
  6. ↑ 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
  7. ↑ 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
  8. ↑ 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
  9. ↑ 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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