Ubiquitin protein ligase 3D structures

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Line 18: Line 18:
**[[2m9y]] – hUPL catalytic domain - NMR<br />
**[[2m9y]] – hUPL catalytic domain - NMR<br />
**[[5udh]], [[5tte]] – hUPL + E2 L3 + ubiquitin<br />
**[[5udh]], [[5tte]] – hUPL + E2 L3 + ubiquitin<br />
 +
**[[7b5m]], [[7b5n]], [[7b5s]] – hUPL + UPL RBX1 + Cul1 – Cryo EM<br />
 +
**[[7b5l]] – hUPL in E3 super assembly – Cryo EM<br />
 +
 +
*'''Ubiquitin protein ligase ARIH2'''
 +
 +
**[[7od1]] – hUPL<br />
 +
**[[7oni]] – hUPL + UPL RBX2 + Cul5 + NEDD8 – Cryo EM<br />
*'''Ubiquitin protein ligase Arkadia'''
*'''Ubiquitin protein ligase Arkadia'''
**[[2kiz]] – hUPL RING domain - NMR<br />
**[[2kiz]] – hUPL RING domain - NMR<br />
-
**[[5lg0]], [[5lg7]] – hUPL RING domain (mutant) - NMR<br />
+
**[[5lg0]], [[5lg7]], [[7p2k]] – hUPL RING domain (mutant) - NMR<br />
*'''Ubiquitin protein ligase Bre1'''
*'''Ubiquitin protein ligase Bre1'''
Line 47: Line 54:
*Ubiquitin protein ligase Cbl complex
*Ubiquitin protein ligase Cbl complex
-
**[[1yvh]] – hUPL TKB domain + APS adaptor protein<br />
+
**[[1yvh]], [[6xar]] – hUPL TKB domain + APS adaptor protein<br />
**[[3bum]], [[3bun]], [[3buo]], [[3buw]], [[3bux]], [[3ob1]], [[3ob2]], [[3rlf]], [[3pfv]], [[2k4d]], [[4gpl]] – hUPL TKB domain + peptide <br />
**[[3bum]], [[3bun]], [[3buo]], [[3buw]], [[3bux]], [[3ob1]], [[3ob2]], [[3rlf]], [[3pfv]], [[2k4d]], [[4gpl]] – hUPL TKB domain + peptide <br />
**[[6o02]], [[6o03]] – hUPL TKB domain + monobody<br />
**[[6o02]], [[6o03]] – hUPL TKB domain + monobody<br />
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**[[6qtr]] – AtUPL WD40 domain (mutant) + transcription factor peptide <br />
**[[6qtr]] – AtUPL WD40 domain (mutant) + transcription factor peptide <br />
**[[6qto]], [[6qtw]] – AtUPL WD40 domain + photoreceptor peptide<br />
**[[6qto]], [[6qtw]] – AtUPL WD40 domain + photoreceptor peptide<br />
 +
**[[7vgg]] – AtUPL WD40 domain + photoreceptor peptide – Cryo EM<br />
**[[6qts]] – AtUPL WD40 domain (mutant) + photoreceptor peptide<br />
**[[6qts]] – AtUPL WD40 domain (mutant) + photoreceptor peptide<br />
**[[6qtu]] – AtUPL WD40 domain + BBX peptide<br />
**[[6qtu]] – AtUPL WD40 domain + BBX peptide<br />
Line 170: Line 178:
*'''Ubiquitin protein ligase HUWE1''' Domains: WWE 1611-1700; UBM1 2951-3003; HECT 4005-4374
*'''Ubiquitin protein ligase HUWE1''' Domains: WWE 1611-1700; UBM1 2951-3003; HECT 4005-4374
 +
**[[7jq9]], [[7mwd]], [[7mwe]], [[7mwf]] - hUPL – Cryo EM<br />
**[[6miw]] - hUPL WWE domain<br />
**[[6miw]] - hUPL WWE domain<br />
**[[6pfl]] - hUPL WWE domain + ADPR<br />
**[[6pfl]] - hUPL WWE domain + ADPR<br />
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**[[2mul]], [[2ekk]] – hUPL UBM1 domain - NMR <br />
**[[2mul]], [[2ekk]] – hUPL UBM1 domain - NMR <br />
**[[6fyh]] – hUPL residues 4255-4374 (mutant) + ubiquitin<br />
**[[6fyh]] – hUPL residues 4255-4374 (mutant) + ubiquitin<br />
 +
**[[7mop]] - hUPL + DDIT4 – Cryo EM<br />
 +
**[[7bii]] - NeUPL - Nematocide<br />
 +
**[[7nh3]] - NeUPL – Cryo EM<br />
*'''Ubiquitin protein ligase IpaH'''
*'''Ubiquitin protein ligase IpaH'''
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**[[5im8]] – hUPL COS domain - NMR <br />
**[[5im8]] – hUPL COS domain - NMR <br />
 +
**[[7qry]] – hUPL PSY-SPRY domain <br />
*'''Ubiquitin protein ligase MSL-2'''
*'''Ubiquitin protein ligase MSL-2'''
Line 269: Line 282:
**[[2oni]] – hUPL catalytic domain <br />
**[[2oni]] – hUPL catalytic domain <br />
**[[2nsq]] – hUPL C2 domain <br />
**[[2nsq]] – hUPL C2 domain <br />
 +
**[[7lp1]] – hUPL WW3 domain <br />
 +
**[[7lp4]] – hUPL WW3 domain - NMR<br />
**[[2mpt]] – hUPL WW3+PY domain - NMR<br />
**[[2mpt]] – hUPL WW3+PY domain - NMR<br />
**[[2mpt]] – hUPL WWWP1 - NMR<br />
**[[2mpt]] – hUPL WWWP1 - NMR<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 />
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**[[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 />
**[[4a0l]] – hUPL 1 + cullin-4B + DNA damage-binding protein + DNA<br />
 +
**[[7b5n]] – hUPL 1 + hPolyUBB-C + Cul1 + Nedd8 + ARITH1 + Ube2L3 – Cryo EM<br />
 +
**[[7okq]] – hUPL 1 + DDB1 + Cul4A + DCAF1<br />
*'''Ubiquitin protein ligase RFWD'''
*'''Ubiquitin protein ligase RFWD'''
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**[[3rpg]], [[4s3o]] – hUPL + polycomb complex protein BMI-1 + E2 D3 <br />
**[[3rpg]], [[4s3o]] – hUPL + polycomb complex protein BMI-1 + E2 D3 <br />
**[[4r8p]] – hUPL + polycomb complex protein BMI-1 + histones + DNA <br />
**[[4r8p]] – hUPL + polycomb complex protein BMI-1 + histones + DNA <br />
 +
**[[6wi8]] – hUPL + polycomb complex protein BMI-1 <br />
 +
**[[7nd1]] – hUPL + polycomb complex protein BMI-1 + inhibitor - NMR<br />
**[[2ckl]] – mUPL RING domain + polycomb group ring finger protein 4 <br />
**[[2ckl]] – mUPL RING domain + polycomb group ring finger protein 4 <br />
**[[2h0d]] – mUPL RING domain + B lymphoma MO-MLV insertion region <br />
**[[2h0d]] – mUPL RING domain + B lymphoma MO-MLV insertion region <br />
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**[[4ljp]] – hUPL 31 catalytic domain (mutant) + ubiquitin<br />
**[[4ljp]] – hUPL 31 catalytic domain (mutant) + ubiquitin<br />
**[[5edv]] – hUPL 31 catalytic domain + ubiquitin + E2 D2<br />
**[[5edv]] – hUPL 31 catalytic domain + ubiquitin + E2 D2<br />
 +
**[[7v8f]] – hUPL 31 catalytic domain + E2 L3<br />
**[[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 />
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**[[5y3t]] – hUPL 31 residues 474-630 + Sharpin + HOIL-7 <br />
**[[5y3t]] – hUPL 31 residues 474-630 + Sharpin + HOIL-7 <br />
**[[5zbu]] – hUPL 31 RING domain (mutant) + ubiquitin-C + E2 D2<br />
**[[5zbu]] – hUPL 31 RING domain (mutant) + ubiquitin-C + E2 D2<br />
 +
**[[7v8g]] – hUPL 31 catalytic domain + ubiquitin transferase<br />
 +
**[[7ojx]] – hUPL 38 residues 439-515 + polyubiquitin-B + E2 K<br />
**[[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 />
**[[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]] – hUPL 135 Pry-Spry domain + RIG-I + RNA - Cry EM<br />
-
**[[5d0k]], [[5d0m]], [[5ulh]], [[5ulk]] – 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]], [[5ydk]] – hUPL 168 residues 110-188 + diubiquitin <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 />
**[[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]] – 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 />
*'''Ubiquitin protein ligase RSP'''
*'''Ubiquitin protein ligase RSP'''
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**[[2m85]] – hUPL PHD domain - NMR<br />
**[[2m85]] – hUPL PHD domain - NMR<br />
**[[4qn1]] – hUPL residues 1000-1418<br />
**[[4qn1]] – hUPL residues 1000-1418<br />
 +
 +
*'''Ubiquitin protein ligase SH3RF'''
 +
 +
**[[7nzc]] – hUPL SH3-1 domain domain <br />
 +
**[[7nzd]] – hUPL SH3-4 domain domain <br />
*'''Ubiquitin protein ligase SIAH''' Domains: SINA 93-282
*'''Ubiquitin protein ligase SIAH''' Domains: SINA 93-282
Line 449: Line 479:
**[[2kxq]] – hUPL 2 WW2 and WW3 + peptide<br />
**[[2kxq]] – hUPL 2 WW2 and WW3 + peptide<br />
**[[6fx4]] – hUPL 2 + ubiquitin<br />
**[[6fx4]] – hUPL 2 + ubiquitin<br />
 +
**[[7m3q]] – hUPL 2 HECT domain + ubiquitin<br />
*'''Ubiquitin protein ligase SopA'''
*'''Ubiquitin protein ligase SopA'''
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**[[2p1q]] – AtUPL + auxin response protein + SKP1-like protein + herbicide<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
+
*'''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
 +
**[[6uma]], [[6umb]] – hUPL 7 B30.2 domain <br />
 +
**[[7b2s]] – hUPL 9 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 />
**[[5olm]] – hUPL 21 residues 1-129<br />
**[[5olm]] – hUPL 21 residues 1-129<br />
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**[[4nqj]] – hUPL 69 coiled-coil domain <br />
**[[4nqj]] – hUPL 69 coiled-coil domain <br />
**[[6yxe]] – hUPL 69 RING domain<br />
**[[6yxe]] – hUPL 69 RING domain<br />
 +
**[[7qrx]] – hUPL 71 NHL domain<br />
**[[3kb5]] – hUPL 72 PRY-SPRY domain <br />
**[[3kb5]] – hUPL 72 PRY-SPRY domain <br />
**[[2v0k]] – mUPL 21 PRY-SPRY domain <br />
**[[2v0k]] – mUPL 21 PRY-SPRY domain <br />
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**[[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 />
 +
**[[7mex]], [[7mey]] – hUPL 1 UBR-box + Ub + degron + E2 – Cryo EM<br />
**[[5um3]] – hUPL 2 UBR-box (mutant)<br />
**[[5um3]] – hUPL 2 UBR-box (mutant)<br />
**[[5tda]] – hUPL 2 UBR-box + N-degron<br />
**[[5tda]] – hUPL 2 UBR-box + N-degron<br />
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**[[3fl2]] – hUPL 1 RING domain <br />
**[[3fl2]] – hUPL 1 RING domain <br />
**[[3bi7]], [[2pb7]], [[3dwh]] – hUPL 1 SRA domain <br />
**[[3bi7]], [[2pb7]], [[3dwh]] – hUPL 1 SRA domain <br />
 +
**[[6w92]] – hUPL 1 TTD domain <br />
**[[6ved]] – hUPL 1 TTD domain - NMR<br />
**[[6ved]] – hUPL 1 TTD domain - NMR<br />
**[[3oln]] – hUPL 2 SRA domain <br />
**[[3oln]] – hUPL 2 SRA domain <br />
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**[[5iay]] – hUPL 1 tandem TUDOR domains + spacer peptide - NMR <br />
**[[5iay]] – hUPL 1 tandem TUDOR domains + spacer peptide - NMR <br />
**[[5xpi]], [[4qqd]] – hUPL 1 TUDOR domain + inhibitor<br />
**[[5xpi]], [[4qqd]] – hUPL 1 TUDOR domain + inhibitor<br />
 +
**[[6vyj]], [[7fb7]] – hUPL 1 TTD domain + inhibitor<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 />

Revision as of 08:06, 19 June 2022

3D Structures of ubiquitin protein ligase

Updated on 19-June-2022 - 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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