7NPI
| Crystal structure of Mindy2 (C266A) in complex with Lys48-linked penta-ubiquitin (K48-Ub5) | Descriptor: | CHLORIDE ION, Polyubiquitin-C, SODIUM ION, ... | Authors: | Lange, S.M, Armstrong, L.A, Kulathu, Y. | Deposit date: | 2021-02-26 | Release date: | 2021-09-15 | Last modified: | 2024-01-31 | Method: | X-RAY DIFFRACTION (2.81 Å) | Cite: | Mechanism of activation and regulation of deubiquitinase activity in MINDY1 and MINDY2. Mol.Cell, 81, 2021
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7OWD
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7OWC
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7O2W
| Structure of the C9orf72-SMCR8 complex | Descriptor: | Guanine nucleotide exchange protein SMCR8,Guanine nucleotide exchange protein SMCR8,Maltose/maltodextrin-binding periplasmic protein, Ubiquitin-like protein SMT3,Guanine nucleotide exchange C9orf72 | Authors: | Noerpel, J, Cavadini, S, Schenk, A.D, Graff-Meyer, A, Chao, J, Bhaskar, V. | Deposit date: | 2021-03-31 | Release date: | 2021-07-21 | Last modified: | 2024-07-10 | Method: | ELECTRON MICROSCOPY | Cite: | Structure of the human C9orf72-SMCR8 complex reveals a multivalent protein interaction architecture. Plos Biol., 19, 2021
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7OJE
| Crystal structure of the covalent complex between Tribolium castaneum deubiquitinase ZUP and Ubiquitin-PA | Descriptor: | 1,2-ETHANEDIOL, CITRIC ACID, Lys-63-specific deubiquitinase ZUFSP, ... | Authors: | Pichlo, C, Hermanns, T, Hofmann, K, Baumann, U. | Deposit date: | 2021-05-14 | Release date: | 2022-02-02 | Last modified: | 2024-01-31 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | A structural basis for the diverse linkage specificities within the ZUFSP deubiquitinase family. Nat Commun, 13, 2022
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4JQW
| Crystal Structure of a Complex of NOD1 CARD and Ubiquitin | Descriptor: | Nucleotide-binding oligomerization domain-containing protein 1, PHOSPHATE ION, Polyubiquitin-C | Authors: | Ver Heul, A.M, Gakhar, L, Piper, R.C, Ramaswamy, S. | Deposit date: | 2013-03-20 | Release date: | 2014-03-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal structure of a complex of NOD1 CARD and ubiquitin Plos One, 9, 2014
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4JIO
| Bro1 V domain and ubiquitin | Descriptor: | BRO1, Ubiquitin | Authors: | Pashkova, N, Gakhar, L, Piper, R.C. | Deposit date: | 2013-03-06 | Release date: | 2013-06-19 | Last modified: | 2013-07-10 | Method: | X-RAY DIFFRACTION (3.6 Å) | Cite: | The yeast alix homolog bro1 functions as a ubiquitin receptor for protein sorting into multivesicular endosomes. Dev.Cell, 25, 2013
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8ST7
| Structure of E3 ligase VsHECT bound to ubiquitin | Descriptor: | E3 ubiquitin-protein ligase SopA-like catalytic domain-containing protein, Ubiquitin, prop-2-en-1-amine | Authors: | Franklin, T.G, Pruneda, J.N. | Deposit date: | 2023-05-09 | Release date: | 2023-07-12 | Last modified: | 2024-01-03 | Method: | X-RAY DIFFRACTION (1.44 Å) | Cite: | Bacterial ligases reveal fundamental principles of polyubiquitin specificity. Mol.Cell, 83, 2023
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8ST8
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8ST9
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6RYA
| Structure of Dup1 mutant H67A:Ubiquitin complex | Descriptor: | Polyubiquitin-C, Septation initiation protein | Authors: | Donghyuk, S, Ivan, D. | Deposit date: | 2019-06-10 | Release date: | 2019-11-13 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (2.21 Å) | Cite: | Regulation of Phosphoribosyl-Linked Serine Ubiquitination by Deubiquitinases DupA and DupB. Mol.Cell, 77, 2020
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8SH2
| KLHDC2 in complex with EloB and EloC | Descriptor: | Elongin-B, Elongin-C, Kelch domain-containing protein 2 | Authors: | Digianantonio, K.M, Bekes, M. | Deposit date: | 2023-04-13 | Release date: | 2024-01-03 | Last modified: | 2024-02-28 | Method: | ELECTRON MICROSCOPY (3.74 Å) | Cite: | Co-opting the E3 ligase KLHDC2 for targeted protein degradation by small molecules. Nat.Struct.Mol.Biol., 31, 2024
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8RWZ
| Open non-crosslinked structure Brd4BD2-MZ1-(NEDD8)-CRL2VHL | Descriptor: | (2~{S},4~{R})-1-[(2~{S})-2-[2-[2-[2-[2-[2-[(9~{S})-7-(4-chlorophenyl)-4,5,13-trimethyl-3-thia-1,8,11,12-tetrazatricyclo[8.3.0.0^{2,6}]trideca-2(6),4,7,10,12-pentaen-9-yl]ethanoylamino]ethoxy]ethoxy]ethoxy]ethanoylamino]-3,3-dimethyl-butanoyl]-~{N}-[[4-(4-methyl-2,3-dihydro-1,3-thiazol-5-yl)phenyl]methyl]-4-oxidanyl-pyrrolidine-2-carboxamide, Bromodomain-containing protein 4, Cullin-2, ... | Authors: | Ciulli, A, Crowe, C, Nakacone, M.A. | Deposit date: | 2024-02-05 | Release date: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (4 Å) | Cite: | Open non-crosslinked structure Brd4BD2-MZ1-(NEDD8)-CRL2VHL To Be Published
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8SVI
| Ubiquitin variant i53:Mutant L67H with 53BP1 Tudor domain | Descriptor: | GLYCEROL, Tumor protein p53 binding protein 1, Ubiquitin Variant i53: Mutant L67H | Authors: | Partridge, J.R, Holden, J.K, Wibowo, A.S, Mulichak, A. | Deposit date: | 2023-05-16 | Release date: | 2024-03-27 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.15 Å) | Cite: | Functional screening in human HSPCs identifies optimized protein-based enhancers of Homology Directed Repair. Nat Commun, 15, 2024
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8SVJ
| Ubiquitin variant i53: mutant VHH with 53BP1 Tudor domain | Descriptor: | GLYCEROL, Tumor protein p53 binding protein 1, Ubiquitin varient i53 mutant VHH | Authors: | Holden, J, Partridge, J.R, Wibowo, A.S, Mulichak, A. | Deposit date: | 2023-05-16 | Release date: | 2024-03-27 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Functional screening in human HSPCs identifies optimized protein-based enhancers of Homology Directed Repair. Nat Commun, 15, 2024
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8SVG
| Ubiquitin variant i53 in complex with 53BP1 Tudor domain | Descriptor: | Tumor protein p53 binding protein 1, Ubiquitin variant i53 | Authors: | Holden, J.K, Partridge, J.R, Wibowo, A.S, Mulichak, A. | Deposit date: | 2023-05-16 | Release date: | 2024-03-27 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.21 Å) | Cite: | Functional screening in human HSPCs identifies optimized protein-based enhancers of Homology Directed Repair. Nat Commun, 15, 2024
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8SVH
| Ubiquitin variant i53 mutant L67R bound to 53BP1 Tudor Domain | Descriptor: | Tumor protein p53 binding protein 1, Ubiquitin variant i53: mutant L67R | Authors: | Holden, J.K, Partridge, J.R, Wibowo, A.S, Mulichak, A. | Deposit date: | 2023-05-16 | Release date: | 2024-03-27 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (1.16 Å) | Cite: | Functional screening in human HSPCs identifies optimized protein-based enhancers of Homology Directed Repair. Nat Commun, 15, 2024
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6RPQ
| Crystal structure of PhoCDC21-1 intein | Descriptor: | Ubiquitin-like protein SMT3,1108aa long hypothetical cell division control protein | Authors: | Beyer, H.M, Mikula, K.M, Iwai, H. | Deposit date: | 2019-05-14 | Release date: | 2019-08-14 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (2.654 Å) | Cite: | Crystal structures of CDC21-1 inteins from hyperthermophilic archaea reveal the selection mechanism for the highly conserved homing endonuclease insertion site. Extremophiles, 23, 2019
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4LJO
| Structure of an active ligase (HOIP)/ubiquitin transfer complex | Descriptor: | E3 ubiquitin-protein ligase RNF31, IMIDAZOLE, Polyubiquitin-C, ... | Authors: | Rana, R.R, Stieglitz, B, Koliopoulos, M.G, Morris-Davies, A.C, Christodoulou, E, Howell, S, Brown, N.R, Rittinger, K. | Deposit date: | 2013-07-05 | Release date: | 2013-10-16 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.564 Å) | Cite: | Structural basis for ligase-specific conjugation of linear ubiquitin chains by HOIP. Nature, 503, 2013
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6SIS
| Crystal structure of macrocyclic PROTAC 1 in complex with the second bromodomain of human Brd4 and pVHL:ElonginC:ElonginB | Descriptor: | Bromodomain-containing protein 4, Elongin-B, Elongin-C, ... | Authors: | Hughes, S.J, Testa, A, Ciulli, A. | Deposit date: | 2019-08-10 | Release date: | 2019-12-04 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (3.5 Å) | Cite: | Structure-Based Design of a Macrocyclic PROTAC. Angew.Chem.Int.Ed.Engl., 59, 2020
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4LJP
| Structure of an active ligase (HOIP-H889A)/ubiquitin transfer complex | Descriptor: | E3 ubiquitin-protein ligase RNF31, Polyubiquitin-C, ZINC ION | Authors: | Rana, R.R, Stieglitz, B, Koliopoulos, M.G, Morris-Davies, A.C, Christodoulou, E, Howell, S, Brown, N.R, Rittinger, K. | Deposit date: | 2013-07-05 | Release date: | 2013-10-16 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (2.15 Å) | Cite: | Structural basis for ligase-specific conjugation of linear ubiquitin chains by HOIP. Nature, 503, 2013
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4LCD
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4MM3
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6TBM
| Structure of SAGA bound to TBP, including Spt8 and DUB | Descriptor: | Polyubiquitin-B, SAGA-associated factor 11, Spt20, ... | Authors: | Papai, G, Frechard, A, Kolesnikova, O, Crucifix, C, Schultz, P, Ben-Shem, A. | Deposit date: | 2019-11-01 | Release date: | 2020-02-12 | Last modified: | 2021-06-30 | Method: | ELECTRON MICROSCOPY (20 Å) | Cite: | Structure of SAGA and mechanism of TBP deposition on gene promoters. Nature, 577, 2020
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6TNF
| Structure of monoubiquitinated FANCD2 in complex with FANCI and DNA | Descriptor: | DNA (33-MER), FANCD2, Fanconi anemia complementation group I, ... | Authors: | Alcon, P, Shakeel, S, Passmore, L.A. | Deposit date: | 2019-12-07 | Release date: | 2020-02-19 | Last modified: | 2024-05-22 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | FANCD2-FANCI is a clamp stabilized on DNA by monoubiquitination of FANCD2 during DNA repair. Nat.Struct.Mol.Biol., 27, 2020
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