Ubiquitin protein ligase 3D structures

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**[[7rgw]] – hUPL 2 DOC domain 2759-2914<br />
**[[7rgw]] – hUPL 2 DOC domain 2759-2914<br />
**[[7q41]] – hUPL 2 2nd RCC1-like domain 2938-3342 + UPL E3A peptode<br />
**[[7q41]] – hUPL 2 2nd RCC1-like domain 2938-3342 + UPL E3A peptode<br />
 +
 +
*'''Ubiquitin protein ligase HOIL-1'''
 +
 +
**[[7yuj]], [[8bvl]] – hHOIL-1 IBR-RING2 domain 368-510 + Zn<BR />
 +
**[[2lgy]] – hHOIL-1 ubiquitin-like domain 51-139 + Zn – NMR<BR />
 +
**[[4dbg]] – hHOIL-1 ubiquitin-like domain + HOIL-interacting protein <BR />
 +
**[[7v8e]] – hHOIL-1 ubiquitin-like domain + ring-type ubiquitin transferase<BR />
 +
**[[7yui]] – hHOIL-1 195-493 + polyubiquitin-C + Zn <BR />
 +
**[[8eaz]] – hHOIL-1 232-510 + E2 + ubiquitin + Zn <BR />
 +
**[[8im5]] – mHOIL-1 ZNF domain 192-250 + Zn - NMR<BR />
 +
**[[3b08]], [[3b0a]] – mHOIL-1 ZNF domain 192-250 + polyubiquitin-C + Zn <BR />
*'''Ubiquitin protein ligase HRD'''
*'''Ubiquitin protein ligase HRD'''
Line 295: Line 306:
**[[2yho]] – hUPL RING domain + E2<br />
**[[2yho]] – hUPL RING domain + E2<br />
-
*'''Ubiquitin protein ligase NEDD4'''
+
*'''Ubiquitin protein ligase NEDD4; Domains – C2 101-252; HECT 519-900; WW3 841-874'''
**[[3b7y]] – hUPL C2 domain <br />
**[[3b7y]] – hUPL C2 domain <br />
Line 318: Line 329:
**[[2ez5]] – DmUPL WW3 domain + COMM LPSY peptide - NMR <br />
**[[2ez5]] – DmUPL WW3 domain + COMM LPSY peptide - NMR <br />
-
*'''Ubiquitin protein ligase NEDD4-like'''
+
*'''Ubiquitin protein ligase NEDD4-like; Domains – C2 1-154; WW1 193-226; WW2 365-398; HECT 594-967; WW3 493-539; PY 945-957'''
-
**[[2oni]] – hUPL catalytic domain <br />
+
**[[2oni]] – hUPL HECT domain <br />
**[[2nsq]] – hUPL C2 domain <br />
**[[2nsq]] – hUPL C2 domain <br />
-
**[[7lp1]] – hUPL WW3 domain <br />
+
**[[7lp5]] – hUPL WW3 domain <br />
**[[7lp4]] – hUPL WW3 domain - NMR<br />
**[[7lp4]] – hUPL WW3 domain - NMR<br />
-
**[[2mpt]] – hUPL WW3+PY domain - NMR<br />
+
**[[2mpt]] – hUPL WW3 domain + PY domain - NMR<br />
-
**[[2mpt]] – hUPL WWWP1 - NMR<br />
+
**[[7lp3]] – hUPL WW1 domain + peptide <br />
-
**[[7lp2]], [[7lp3]] – hUPL WW3 domain + anglomotin<br />
+
**[[5hpk]] – hUPL HECT domain + ubiquitin <br />
**[[5hpk]] – hUPL HECT domain + ubiquitin <br />
**[[3jvz]], [[3jw0]] – hUPL HECT domain + ubiquitin + E2 D2<br />
**[[3jvz]], [[3jw0]] – hUPL HECT domain + ubiquitin + E2 D2<br />
**[[2lty]], [[2lb2]] – hUPL WW2 domain + peptide - NMR <br />
**[[2lty]], [[2lb2]] – hUPL WW2 domain + peptide - NMR <br />
 +
**[[7lp2]] – hUPL WW3 domain + peptide <br />
 +
**[[7lp1]] – hUPL WW2 domain + peptide <br />
**[[2laj]] – hUPL WW3 domain + peptide - NMR <br />
**[[2laj]] – hUPL WW3 domain + peptide - NMR <br />
Line 340: Line 352:
**[[5hpt]] – hUPL 1 HECT domain + ubiquitin + E2 L3<br />
**[[5hpt]] – hUPL 1 HECT domain + ubiquitin + E2 L3<br />
**[[4y07]] – hUPL 2 HECT domain <br />
**[[4y07]] – hUPL 2 HECT domain <br />
 +
**[[8ei5]] – hUPL 2 HECT domain + peptide<br />
**[[5tj8]], [[5tjq]], [[5tj7]], [[6j1z]] – hUPL 2 WW2+WW3+linker+HECT domain <br />
**[[5tj8]], [[5tjq]], [[5tj7]], [[6j1z]] – hUPL 2 WW2+WW3+linker+HECT domain <br />
**[[6rss]] – hUPL 2 WW4 domain - NMR<br />
**[[6rss]] – hUPL 2 WW4 domain - NMR<br />
 +
 +
*'''Ubiquitin protein ligase Orthrus 2'''
 +
 +
**[[7duf]] – AtUPL PHD finger domain 1-63<br />
 +
 +
*'''Ubiquitin protein ligase Parkin''' See [[Parkin]]
 +
 +
*'''Ubiquitin protein ligase Ppil'''
 +
 +
**[[7abi]], [[7dvq]], [[7qtt]] – hUPL 2 in spliceosome – Cryo EM<br />
*'''Ubiquitin protein ligase Praja'''
*'''Ubiquitin protein ligase Praja'''
Line 347: Line 370:
**[[2l0b]] – hUPL RING-type zinc finger domain - NMR<br />
**[[2l0b]] – hUPL RING-type zinc finger domain - NMR<br />
-
*'''Ubiquitin protein ligase PARKIN'''
+
*'''Ubiquitin protein ligase pep5'''
-
**[[5c1z]], [[5c23]] – hUPL <br />
+
**[[8cuk]] – yUPL WD40 domain 1-350<br />
-
**[[5c9v]], [[6hue]] – hUPL (mutant)<br />
+
**[[7zu0]] – yUPL in HOPS tethering complex – Cryo EM<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 L3<br />
+
-
**[[6n13]] – hUPL + ubiquitin + polyubiquitin + E2 L3<br />
+
-
**[[6djx]] – hUPL (mutant) + ubiquitin + E2 L3<br />
+
-
**[[6n13]] – hUPL (mutant) + ubiquitin + E2 L3+ 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 PRT6'''
*'''Ubiquitin protein ligase PRT6'''
 +
 +
**[[6lhn]], [[7xwd]], [[7xwe]], [[7xwf]], [[7xwg]], [[7y6w]], [[7y6x]], [[7y6y]], [[7y6z]], [[7y70]] – AtUPL UBR box 119-188<br />
 +
**[[7wuk]], [[7wum]] – riUPL UBR box - rice<br />
 +
**[[7wul]], [[7wun]] – riUPL UBR box + peptide<br />
**[[6lhn]] – AtUPL <br />
**[[6lhn]] – AtUPL <br />
Line 395: Line 404:
**[[4a0k]], [[4a0c]] – hUPL 1 + cullin-4B + cullin-associated NEDD8-dissociated protein<br />
**[[4a0k]], [[4a0c]] – hUPL 1 + cullin-4B + cullin-associated NEDD8-dissociated protein<br />
**[[4p5o]] – hUPL 1 + cullin-1 + Ubc12 + DCN1-like protein<br />
**[[4p5o]] – hUPL 1 + cullin-1 + Ubc12 + DCN1-like protein<br />
 +
**[[7z8r]] – hUPL 1 + cullin-1 + CAND1 – Cryo EM<br />
 +
**[[8or2]] – hUPL 1 + cullin-1 + CAND1 + DCN1-like protein – Cryo EM<br />
 +
**[[8cdj]], [[8cdk]] – hUPL 1 + cullin-1 + CAND1 + SKP1 + SKP2 – Cryo EM<br />
 +
**[[8or3]] – hUPL 1 + cullin-1 + CAND1 + SKP1 + SKP2 + DCNL1 – Cryo EM<br />
 +
**[[8or0]], [[8or4]] – hUPL 1 + cullin-1 + CAND1 + SKP1 + SKP2 + CKS-1 + CDK 2 – Cryo EM<br />
 +
**[[7b5n]] – hUPL 1 + hPolyUBB-C + cullin-1 + Nedd8 + ARITH1 + Ube2L3 – Cryo EM<br />
 +
**[[6ttu]] – hUPL 1 + cullin-1 + F-Box/WD repeat-containing protein + S-phase kinase-associated protein + Nedd8 + E2 D2 + polyubiquitin-C + peptide – Cryo EM<br />
**[[5n4w]] – hUPL 1 + cullin-2 + elongin B + elongin C + VHL<br />
**[[5n4w]] – hUPL 1 + cullin-2 + elongin B + elongin C + VHL<br />
-
**[[4a0l]] – hUPL 1 + cullin-4B + DNA damage-binding protein + DNA<br />
+
**[[8ij1]], [[8je1]] – hUPL 1 + cullin-2 + elongin B + elongin C + FEM-1 – Cryo EM<br />
-
**[[7b5n]] – hUPL 1 + hPolyUBB-C + Cul1 + Nedd8 + ARITH1 + Ube2L3 – Cryo EM<br />
+
**[[8pql]] – hUPL 1 + cullin-2 + Nedd8 + E2 R2 + elongin B + elongin C + FEM-1 + Ub + SIL1 – Cryo EM<br />
-
**[[7okq]] – hUPL 1 + DDB1 + Cul4A + DCAF1<br />
+
**[[8p7r]] – hUPL 1 + cullin-2 + elongin B + elongin C + FEM-1 + Ub + SIL1 – Cryo EM<br />
 +
**[[8jas]], [[8jav]] – hUPL 1 + cullin-2 + elongin B + elongin C + Degron – Cryo EM<br />
 +
**[[8gq6]], [[8h33]], [[8h34]], [[8h35]], [[8h3r]] – hUPL 1 + cullin-3 + KBTBD2 – Cryo EM<br />
 +
**[[8h36]], [[8h37]] – hUPL 1 + cullin-3 + KBTBD2 + p85A – Cryo EM<br />
 +
**[[8khp]] – hUPL 1 + cullin-3 + KLHL22 – Cryo EM<br />
 +
**[[8h3q]] – hUPL 1 + cullin-3 + CAND1 – Cryo EM<br />
 +
**[[8b3i]] – hUPL 1 + cullin-4a + E2 D2 + Nedd8 + Ub + Ercc-8 + DNA damage-binding protein – Cryo EM<br />
 +
**[[7okq]] – hUPL 1 + DDB1 + cullin-4a + DCAF1<br />
 +
**[[4a0l]] – hUPL 1 + cullin-4b + DNA damage-binding protein + DNA<br />
 +
**[[7z8b]] – hUPL 1 + cullin-7 + F-Box/WD repeat-containing protein + S-phase kinase-associated protein – Cryo EM<br />
 +
**[[8h38]], [[8h3a]], [[8h3f]] – hUPL 1 in signalosome complex – Cryo EM <br />
 +
**[[7opc]], [[7opd]] – hUPL 1 in transcription-DNA repair coupling complex – Cryo EM <br />
*'''Ubiquitin protein ligase RFWD'''
*'''Ubiquitin protein ligase RFWD'''
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**[[6cvz]] – hUPL 3 WD40-repeat domain <br />
**[[6cvz]] – hUPL 3 WD40-repeat domain <br />
-
*'''Ubiquitin protein ligase RGLG1'''
+
*'''Ubiquitin protein ligase RGLG'''
-
**[[6k8b]], [[6k8a]], [[6k87]], [[6k88]], [[6k89]] – AtUPL VWA domain <br />
+
**[[6k87]], [[6k88]], [[6k89]], [[6k8a]], [[6k8b]] – AtUPL 1 VWA domain <br />
-
**[[6k82]], [[6k83]], [[6k85]], [[6k86]] – AtUPL VWA domain (mutant)<br />
+
**[[6k82]], [[6k83]], [[6k85]], [[6k86]] – AtUPL 1 VWA domain (mutant)<br />
 +
**[[8hmg]], [[8hmh]] – AtUPL 2 VWA domain <br />
*'''Ubiquitin protein ligase RING2'''
*'''Ubiquitin protein ligase RING2'''
Line 428: Line 456:
**[[6w9d]] – hUPL RING domain + ubiquitin + E2 D2<br />
**[[6w9d]] – hUPL RING domain + ubiquitin + E2 D2<br />
-
*'''Ubiquitin protein ligase RNF or ring finger protein''' Domains: PUB 1-184; RING 216-290; catalytic 853-1072;
+
*'''Ubiquitin protein ligase RMD5'''
 +
 
 +
**[[7ns4]] – yUPL + FYV10 – Cryo EM<br />
 +
**[[8pmq]] – yUPL + FYV10 + E2 24kDa + Ub – Cryo EM<br />
 +
 
 +
*'''Ubiquitin protein ligase RNF or ring finger protein''' Domains: PUB 1-184; RING 216-290; Pry-Spry 249-432;catalytic 853-1072;
**[[4ppe]], [[3ng2]] – hUPL 4 RING domain <br />
**[[4ppe]], [[3ng2]] – hUPL 4 RING domain <br />
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**[[3v3l]] – hUPL 146 zinc finger <br />
**[[3v3l]] – hUPL 146 zinc finger <br />
**[[5d0i]] – hUPL 165 residues 255-348 <br />
**[[5d0i]] – hUPL 165 residues 255-348 <br />
 +
**[[7r70]] – hUPL 165 residues 255-348/Ub <br />
**[[3l11]], [[4gb0]] – hUPL 168 RING domain <br />
**[[3l11]], [[4gb0]] – hUPL 168 RING domain <br />
**[[5zi6]] – hUPL 194 residues 605-659<br />
**[[5zi6]] – hUPL 194 residues 605-659<br />
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**[[4owf]] – hUPL 31 catalytic domain + nf-κ-B modulator<br />
**[[4owf]] – hUPL 31 catalytic domain + nf-κ-B modulator<br />
**[[4oyk]], [[4p0b]] – hUPL 31 PUB domain + otulin<br />
**[[4oyk]], [[4p0b]] – hUPL 31 PUB domain + otulin<br />
 +
**[[7uy2]], [[7uyk]] – hUPL 31 PUB domain + peptide<br />
**[[4p0a]] – hUPL 31 PUB domain + p97 peptide<br />
**[[4p0a]] – hUPL 31 PUB domain + p97 peptide<br />
**[[5ljn]] – hUPL 31 PUB domain + SPATA2 peptide<br />
**[[5ljn]] – hUPL 31 PUB domain + SPATA2 peptide<br />
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**[[4v3k]], [[4v3l]] – hUPL 38 residues 439-515 + polyubiquitin-C + E2 D2<br />
**[[4v3k]], [[4v3l]] – hUPL 38 residues 439-515 + polyubiquitin-C + E2 D2<br />
**[[4kng]] – hUPL 43 PA domain + LGR5 + RSPO1<br />
**[[4kng]] – hUPL 43 PA domain + LGR5 + RSPO1<br />
 +
**[[8gbq]], [[8gcb]] – hUPL 125 residues 32-127 + E2 D2 <br />
**[[2n9p]] – hUPL 126 N-terminal + BAG6 ubiquitin-like domain - NMR<br />
**[[2n9p]] – hUPL 126 N-terminal + BAG6 ubiquitin-like domain - NMR<br />
-
**[[7jl1]], [[7jl3]] – hUPL 135 Pry-Spry domain + RIG-I + RNA - Cry EM<br />
+
**[[7jl1]], [[7jl3]], [[8g7t]], [[8g7u]], [[8g7v]] – hUPL 135 Pry-Spry domain + RIG-I + RNA - Cry EM<br />
**[[5d0k]], [[5d0m]], [[5ulh]], [[5ulk]], [[7r71]] – hUPL 165 residues 255-348 + ubiquitin + E2 D2 <br />
**[[5d0k]], [[5d0m]], [[5ulh]], [[5ulk]], [[7r71]] – hUPL 165 residues 255-348 + ubiquitin + E2 D2 <br />
-
**[[5xis]], [[5ydk]] – hUPL 168 residues 110-188 + diubiquitin <br />
+
**[[5xis]], [[5xit]], [[5xiu]], [[5ydk]] – hUPL 168 residues 110-188 + diubiquitin <br />
 +
**[[8smw]], [[8smx]], [[8smy]], [[8smz]], [[8sn0]], [[8sn1]], [[8sn2]], [[8sn3]], [[[8sn4]], [8sn5]], [[8sn6]], [[8sn7]], [[8sn8]], [[8sn9]], [[8sna]], [[8txw]], [[8u13]], [[8u14]], [[8upf]] – hUPL 168 in nucleosome – Cryo EM<br />
 +
**[[8uqa]] – hUPL 168/histone H2A/histone H2B – Cryo EM<br />
 +
**[[8uq9]], [[8uqb]], [[8uqc]], [[8uqd]], [[8uqe]] – hUPL 168/E2 D3/histone H2A/histone H2B – Cryo EM<br />
**[[5vey]] – hUPL 169 residues 653-708 + polyubiquitin + histone 2B - NMR<br />
**[[5vey]] – hUPL 169 residues 653-708 + polyubiquitin + histone 2B - NMR<br />
-
**[[7m4m]], [[7m4n]], [[7m4o]] – hUPL 216 residues 649-784 (mutant) + ubiquitin <br />
+
**[[7m4n]], [[7m4o]] – hUPL 216 residues 649-784 (mutant) + ubiquitin <br />
 +
**[[8eb0]] – hUPL 216 residues 510-784 (mutant) + E2 L3 + ubiquitin <br />
 +
**[[7m4m]] – hUPL 216 + Ub <br />
**[[2rsf]] – mUPL 146 WWE domain + ATP<br />
**[[2rsf]] – mUPL 146 WWE domain + ATP<br />
**[[4qpl]] – mUPL 146 RING+WWE domains + E2<br />
**[[4qpl]] – mUPL 146 RING+WWE domains + E2<br />
-
**[[6tax]] – mUPL 213 + ATP - Cryo EM<br />
+
**[[6tax]], [[7oim]] – mUPL 213 + ATP - Cryo EM<br />
**[[6tay]] – mUPL 213 (mutant) + ATP - Cryo EM<br />
**[[6tay]] – mUPL 213 (mutant) + ATP - Cryo EM<br />
-
**[[7oik]] – mUPL 213 + E2 + ATP - Cryo EM<br />
+
**[[7oik]] – mUPL 213 + E2 L3 + ATP - Cryo EM<br />
*'''Ubiquitin protein ligase RSP'''
*'''Ubiquitin protein ligase RSP'''
Line 502: Line 543:
**[[4c9z]], [[4ca1]] – hUPL 1 SINA domain <br />
**[[4c9z]], [[4ca1]] – hUPL 1 SINA domain <br />
**[[2a25]] – hUPL 1 SINA domain + calcyclin-binding protein peptide <br />
**[[2a25]] – hUPL 1 SINA domain + calcyclin-binding protein peptide <br />
-
**[[4x3g]], [[5wzz]] – hUPL 1 SINA domain + peptide <br />
+
**[[4x3g]], [[5wzz]], [[8heo]] – hUPL 1 SINA domain + peptide <br />
**[[4i7b]], [[4i7d]] – hUPL 1 C terminal + phyllopod peptide <br />
**[[4i7b]], [[4i7d]] – hUPL 1 C terminal + phyllopod peptide <br />
**[[4i7c]] – hUPL 1 C terminal (mutant) + phyllopod pept
**[[4i7c]] – hUPL 1 C terminal (mutant) + phyllopod pept
-
**[[5h9m]] – hUPL 2 SBD domain <br />
+
**[[5h9m]] – hUPL 2 SINA domain <br />
**[[2an6]] – mUPL 1 SINA domain + phyllopod peptide <br />
**[[2an6]] – mUPL 1 SINA domain + phyllopod peptide <br />
Line 526: Line 567:
**[[3sy2]] – SeUPL residues 165-782 + ubiquitin + E2 L3<br />
**[[3sy2]] – SeUPL residues 165-782 + ubiquitin + E2 L3<br />
**[[5jw7]] – SeUPL residues 163-425 + TRIM56 <br />
**[[5jw7]] – SeUPL residues 163-425 + TRIM56 <br />
 +
**[[8st8]], [[8st9]] – EcUPL residues 606-782 + ubiquitin <br />
*'''Ubiquitin protein ligase SSPH1'''
*'''Ubiquitin protein ligase SSPH1'''
Line 536: Line 578:
**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein <br />
**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein <br />
**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein + herbicide<br />
**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein + herbicide<br />
 +
 +
*'''Ubiquitin protein ligase TRAF or ring-type E3 ubiquitin transferase TRAF'''
 +
 +
**[[6myd]] – zUPL 6 370-525 + STING CTT - zebrafish<br />
 +
**[[8ims]] – hUPL 7 coiled-coil domain 194-303<br />
*'''Ubiquitin protein ligase TRIM''' Domains RING 1-123; B2-box 117-161; coiled-coil 203-393; PRY-SPRY 249-442; NHL 590-868; PHD-bromo 882-1087
*'''Ubiquitin protein ligase TRIM''' Domains RING 1-123; B2-box 117-161; coiled-coil 203-393; PRY-SPRY 249-442; NHL 590-868; PHD-bromo 882-1087
 +
**[[8a38]] – hUPL 2 RING domain <br />
 +
**[[7b2r]], [[7b96]], [[7qrv]] – hUPL 2 NHL domain <br />
**[[6uma]], [[6umb]] – hUPL 7 B30.2 domain <br />
**[[6uma]], [[6umb]] – hUPL 7 B30.2 domain <br />
**[[7b2s]] – hUPL 9 PRY-SPRY domain <br />
**[[7b2s]] – hUPL 9 PRY-SPRY domain <br />
**[[7qs1]] – hUPL 11 PRY-SPRY domain <br />
**[[7qs1]] – hUPL 11 PRY-SPRY domain <br />
**[[6jbm]] – hUPL 14 PRY-SPRY domain <br />
**[[6jbm]] – hUPL 14 PRY-SPRY domain <br />
 +
**[[7qs3]] – hUPL 16 PRY-SPRY domain <br />
**[[5olm]] – hUPL 21 residues 1-129<br />
**[[5olm]] – hUPL 21 residues 1-129<br />
**[[5jpx]] – hUPL 21 B2-Box domain - NMR <br />
**[[5jpx]] – hUPL 21 B2-Box domain - NMR <br />
**[[5vzv]] – hUPL 23 RING domain <br />
**[[5vzv]] – hUPL 23 RING domain <br />
 +
**[[7b9x]] – hUPL 24 901-1006 - NMR <br />
**[[6flm]] – hUPL 25 PRY-SPRY domain <br />
**[[6flm]] – hUPL 25 PRY-SPRY domain <br />
**[[6fln]] – hUPL 25 PRY-SPRY + coiled-coil domains <br />
**[[6fln]] – hUPL 25 PRY-SPRY + coiled-coil domains <br />
Line 556: Line 607:
**[[3u5m]] – hUPL 33 PHD+Bromo domains <br />
**[[3u5m]] – hUPL 33 PHD+Bromo domains <br />
**[[3ddt]] – hUPL 37 B2-box <br />
**[[3ddt]] – hUPL 37 B2-box <br />
 +
**[[8pd4]], [[8pd6]] – hUPL 58 PRY-SPRY domain <br />
**[[4m3l]] – hUPL 63 coiled-coil domain <br />
**[[4m3l]] – hUPL 63 coiled-coil domain <br />
**[[4nqj]] – hUPL 69 coiled-coil domain <br />
**[[4nqj]] – hUPL 69 coiled-coil domain <br />
Line 561: Line 613:
**[[7qrx]] – hUPL 71 NHL domain<br />
**[[7qrx]] – hUPL 71 NHL domain<br />
**[[3kb5]] – hUPL 72 PRY-SPRY domain <br />
**[[3kb5]] – hUPL 72 PRY-SPRY domain <br />
 +
**[[7xyy]] – hUPL 72 2-477 <br />
**[[2v0k]] – mUPL 21 PRY-SPRY domain <br />
**[[2v0k]] – mUPL 21 PRY-SPRY domain <br />
**[[4b8e]] – mUPL 25 PRY-SPRY domain <br />
**[[4b8e]] – mUPL 25 PRY-SPRY domain <br />
-
**[[6fpt]] – zUPL 71 - zebrafish<br />
+
**[[6o5k]] – mUPL 28 B2-box domain <br />
 +
**[[8fvf]] – mUPL 56 coiled-coil domain <br />
 +
**[[7xyz]], [[7xz1]], [[7xz2]] – mUPL 72 7-470 (mutant) <br />
 +
**[[6fpt]] – zUPL 71 <br />
*Ubiquitin protein ligase TRIM complexes
*Ubiquitin protein ligase TRIM complexes
 +
**[[7zj3]] – hUPL 2 RING domain + E2 D1 + polyubiquitin-C <br />
 +
**[[8ams]] – hUPL 2 RING domain + E2 D3 + polyubiquitin-C <br />
 +
**[[7ow2]], [[7w0q]], [[7w0s]], [[8a5l]], [[8a5m]], [[8a8x]] – hUPL 7 PRY-SPRY domain + peptide<br />
 +
**[[8r5c]] – hUPL 7 PRY-SPRY domain + indole derivative<br />
 +
**[[7ovx]], [[7w0t]], [[7x6y]], [[7x6z]], [[7x70]], [[7y3a]], [[7y3b]], [[7y3c]] – hUPL 7 338-531+ peptide<br />
**[[6fga]] – hUPL 21 RING domain + E2 E1 <br />
**[[6fga]] – hUPL 21 RING domain + E2 E1 <br />
 +
**[[8a58]] – hUPL 21 RING domain + E2 W <br />
 +
**[[6s53]] – hUPL 21 RING domain + E2 N + polyubiquitin-C <br />
 +
**[[7bbd]] – hUPL 21 RING domain + E2 N + E2 2 + polyubiquitin-C <br />
**[[6s53]] – hUPL 21 RING domain + ubiquitin + E2 N <br />
**[[6s53]] – hUPL 21 RING domain + ubiquitin + E2 N <br />
**[[5vzw]] – hUPL 23 RING domain + ubiquitin + E2 D2 <br />
**[[5vzw]] – hUPL 23 RING domain + ubiquitin + E2 D2 <br />
**[[5eya]] – hUPL 25 RING domain + ubiquitin + E2 N <br />
**[[5eya]] – hUPL 25 RING domain + ubiquitin + E2 N <br />
**[[5fer]] – hUPL 25 RING domain + ribosomal protein S2 + E2 D1 <br />
**[[5fer]] – hUPL 25 RING domain + ribosomal protein S2 + E2 D1 <br />
-
**[[5nt2]], [[5nt1]] – hUPL 25 coiled-coil + nonstructural protein<br />
+
**[[5nt1]], [[5nt2]] – hUPL 25 coiled-coil + nonstructural protein<br />
-
**[[3u5n]], [[3u5o]], [[3u5p]], [[5mr8]] – hUPL 33 PHD+Bromo domain + H3-histone peptide <br />
+
**[[3u5n]], [[3u5o]], [[3u5p]], [[5mr8]], [[7zdd]] – hUPL 33 PHD+Bromo domain + H3-histone peptide <br />
 +
**[[8bd8]], [[8bd9]], [[8bdy]] – hUPL 33 PHD+Bromo domain + inhibitor <br />
 +
**[[7qrx]] – hUPL 71 NHL domain<br />
 +
**[[5w9a]] – UPL 5 88-296 domain (mutant) + MAP 1A/1B - monkey<br />
**[[3zo0]] – mUPL 21 PRY-SPRY domain + IG γ-2A<br />
**[[3zo0]] – mUPL 21 PRY-SPRY domain + IG γ-2A<br />
**[[6fq3]], [[6fql]] – zUPL 71 + RNA<br />
**[[6fq3]], [[6fql]] – zUPL 71 + RNA<br />
 +
 +
*'''Ubiquitin protein ligase TRIP'''
 +
 +
**[[9bks]] – hUPL 12 WWW domain 761-839 + ADP <br />
*'''Ubiquitin protein ligase UBR'''
*'''Ubiquitin protein ligase UBR'''
-
**[[3ny1]], [[3ny2]] – hUPL 1 UBR-box <br />
+
**[[8d4x]]– hUPL 1 – Cryo EM<br />
 +
**[[3ny1]], [[3ny2]] – hUPL 1 UBR-box 98-168 <br />
**[[3ny3]] – hUPL 1 UBR-box + N-degron<br />
**[[3ny3]] – hUPL 1 UBR-box + N-degron<br />
**[[5tdc]] – hUPL 1 UBR-box + peptide<br />
**[[5tdc]] – hUPL 1 UBR-box + peptide<br />
Line 586: Line 658:
**[[5tda]] – hUPL 2 UBR-box + N-degron<br />
**[[5tda]] – hUPL 2 UBR-box + N-degron<br />
**[[5tdd]], [[5tdb]] – hUPL 2 UBR-box + peptide<br />
**[[5tdd]], [[5tdb]] – hUPL 2 UBR-box + peptide<br />
 +
**[[8j9q]], [[8j9r]] – hUPL 4 UBR-box <br />
 +
**[[8bja]], [[8e0q]] – hUPL 5 – Cryo EM <br />
 +
**[[8c06]] – hUPL 5 (mutant) – Cryo EM <br />
 +
**[[8c07]] – hUPL 5 + polyubiquitin-B – Cryo EM <br />
**[[3pt3]] – hUPL 5 C terminal <br />
**[[3pt3]] – hUPL 5 C terminal <br />
**[[5vmd]] – hUPL 6 UBR-box <br />
**[[5vmd]] – hUPL 6 UBR-box <br />
**[[3ntw]] – rUPL 5 MLLE domain + peptide <br />
**[[3ntw]] – rUPL 5 MLLE domain + peptide <br />
-
**[[3nis]], [[3nit]], [[6kgi]] – yUPL 1 UBR-box - yeast <br />
+
**[[3nis]], [[3nit]], [[6kgi]] – yUPL 1 UBR-box <br />
**[[3nih]], [[3nii]], [[3nij]], [[3nik]], [[3nil]], [[3nim]], [[3nin]] – yUPL 1 UBR-box + peptide<br />
**[[3nih]], [[3nii]], [[3nij]], [[3nik]], [[3nil]], [[3nim]], [[3nin]] – yUPL 1 UBR-box + peptide<br />
Line 620: Line 696:
**[[5xpi]], [[4qqd]] – hUPL 1 TUDOR domain + inhibitor<br />
**[[5xpi]], [[4qqd]] – hUPL 1 TUDOR domain + inhibitor<br />
**[[6vyj]], [[7fb7]] – hUPL 1 TTD domain + inhibitor<br />
**[[6vyj]], [[7fb7]] – hUPL 1 TTD domain + inhibitor<br />
 +
**[[5yy9]] – hUPL 1 TTD domain + peptide<br />
**[[6vcs]] – hUPL 1 SRA domain + DNA<br />
**[[6vcs]] – hUPL 1 SRA domain + DNA<br />
**[[4pw5]], [[4pw6]], [[4pw7]] – hUPL 2 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]], [[6m2v]] – 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
*'''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
Line 630: Line 707:
**[[4j3y]] – hXIAP BIR2 domain (mutant) <BR />
**[[4j3y]] – hXIAP BIR2 domain (mutant) <BR />
**[[1f9x]] – hXIAP BIR3 domain – NMR <BR />>
**[[1f9x]] – hXIAP BIR3 domain – NMR <BR />>
-
**[[4ic2]] – hXIAP RING domain <BR />
+
**[[4ic2]], [[8w5a]] – hXIAP RING domain <BR />
**[[4ic3]] – hXIAP RING domain (mutant) <BR />
**[[4ic3]] – hXIAP RING domain (mutant) <BR />
**[[2kna]] – hXIAP UBA domain - NMR <BR />
**[[2kna]] – hXIAP UBA domain - NMR <BR />
Line 642: Line 719:
**[[4j44]], [[4j45]], [[4j46]], [[4j47]], [[4j48]] - hXIAP BIR2 domain (mutant) + peptide<BR />
**[[4j44]], [[4j45]], [[4j46]], [[4j47]], [[4j48]] - hXIAP BIR2 domain (mutant) + peptide<BR />
**[[4kju]], [[4kjv]], [[4wvs]], [[4wvt]], [[4wvu]], [[4kjv]] - hXIAP BIR2 domain (mutant) + inhibitor<BR />
**[[4kju]], [[4kjv]], [[4wvs]], [[4wvt]], [[4wvu]], [[4kjv]] - hXIAP BIR2 domain (mutant) + inhibitor<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 />
+
**[[3hl5]], [[4hy0]], [[4kmp]], [[4wvs]], [[4wvt]], [[4wvu]], [[5c0k]], [[5c0l]], [[5c3h]], [[5c3k]], [[5c7a]], [[5c7b]], [[5c7c]], [[5c7d]], [[5c83]], [[5c84]], [[5oqm]], [[5oqw]], [[6h6q]], [[6h6r]] – hXIAP BIR3 domain + inhibitor <BR />
**[[5m6e]], [[5m6f]], [[5m6h]], [[5m6l]], [[5m6m]], [[5m6n]], [[6ey2]] - hXIAP BIR3 domain (mutant) + inhibitor<BR />
**[[5m6e]], [[5m6f]], [[5m6h]], [[5m6l]], [[5m6m]], [[5m6n]], [[6ey2]] - hXIAP BIR3 domain (mutant) + inhibitor<BR />
-
**[[2jk7]], [[2vsl]], [[3g76]], [[4ec4]], [[3clx]], [[3cm2]], [[3cm7]], [[3eyl]], [[6ey2]] – hXIAP BIR3 domain + Smac mimetic <BR />
+
**[[2jk7]], [[2vsl]], [[3clx]], [[3cm2]], [[3cm7]], [[3eyl]], [[3g76]], [[4ec4]] – hXIAP BIR3 domain + Smac mimetic <BR />
 +
**[[8gh7]] - hXIAP BIR3 domain + peptide inhibitor<BR />
**[[3uw4]] - hXIAP BIR3 domain (mutant) + peptide<BR />
**[[3uw4]] - hXIAP BIR3 domain (mutant) + peptide<BR />
**[[5o6t]] – hXIAP RING domain + diubiquitin <BR />
**[[5o6t]] – hXIAP RING domain + diubiquitin <BR />
 +
**[[8w59]] – hXIAP RING domain + AsO3<BR />
*'''Ubiquitin protein ligase ZNRF'''
*'''Ubiquitin protein ligase ZNRF'''
Line 652: Line 731:
**[[5ywr]] – hUPL 1 RING domain + E2 N <BR />
**[[5ywr]] – hUPL 1 RING domain + E2 N <BR />
**[[4ufs]] – hUPL 3 ectodomain + R-spondin + LGR5 <br />
**[[4ufs]] – hUPL 3 ectodomain + R-spondin + LGR5 <br />
 +
**[[8g4y]] – hUPL 3 ectodomain + peptide<br />
**[[4cdj]] – mUPL 3 ectodomain <br />
**[[4cdj]] – mUPL 3 ectodomain <br />
**[[4c99]], [[4c9a]], [[4c9e]], [[4c9r]], [[4c9u]], [[4cdk]] – mUPL 3 ectodomain + R-spondin <br />
**[[4c99]], [[4c9a]], [[4c9e]], [[4c9r]], [[4c9u]], [[4cdk]] – mUPL 3 ectodomain + R-spondin <br />

Current revision

3D Structures of ubiquitin protein ligase

Updated on 31-July-2024 - For a general description of the protein see Ubiquitin protein ligase

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Jaime Prilusky

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