6MSB
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![BU of 6msb by Molmil](/molmil-images/mine/6msb) | Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome | Descriptor: | 26S proteasome complex subunit SEM1, 26S proteasome non-ATPase regulatory subunit 1, 26S proteasome non-ATPase regulatory subunit 11, ... | Authors: | Mao, Y.D. | Deposit date: | 2018-10-16 | Release date: | 2018-12-05 | Last modified: | 2019-12-18 | Method: | ELECTRON MICROSCOPY (3 Å) | Cite: | Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome. Nature, 565, 2019
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8ITP
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5C7J
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![BU of 5c7j by Molmil](/molmil-images/mine/5c7j) | CRYSTAL STRUCTURE OF NEDD4 WITH A UB VARIANT | Descriptor: | E3 ubiquitin-protein ligase NEDD4, Polyubiquitin-C | Authors: | Walker, J.R, Hu, J, Dong, A, Bountra, C, Edwards, A.M, Arrowsmith, C.H, Tong, Y, Structural Genomics Consortium (SGC) | Deposit date: | 2015-06-24 | Release date: | 2016-03-16 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | System-Wide Modulation of HECT E3 Ligases with Selective Ubiquitin Variant Probes. Mol.Cell, 62, 2016
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2ZVN
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![BU of 2zvn by Molmil](/molmil-images/mine/2zvn) | NEMO CoZi domain incomplex with diubiquitin in P212121 space group | Descriptor: | NF-kappa-B essential modulator, UBC protein | Authors: | Rahighi, S, Ikeda, F, Kawasaki, M, Akutsu, M, Suzuki, N, Kato, R, Kensche, T, Uejima, T, Bloor, S, Komander, D, Randow, F, Wakatsuki, S, Dikic, I. | Deposit date: | 2008-11-12 | Release date: | 2009-03-24 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation Cell(Cambridge,Mass.), 136, 2009
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3N30
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![BU of 3n30 by Molmil](/molmil-images/mine/3n30) | Crystal Structure of cubic Zn3-hUb (human ubiquitin) adduct | Descriptor: | Ubiquitin, ZINC ION | Authors: | Siliqi, D, Caliandro, R, Arnesano, F, Natile, G, Falini, G, Fermani, S, Belviso, B.D. | Deposit date: | 2010-05-19 | Release date: | 2011-01-12 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Crystallographic analysis of metal-ion binding to human ubiquitin. Chemistry, 17, 2011
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3PHD
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![BU of 3phd by Molmil](/molmil-images/mine/3phd) | Crystal structure of human HDAC6 in complex with ubiquitin | Descriptor: | Histone deacetylase 6, Polyubiquitin, ZINC ION | Authors: | Dong, A, Qui, W, Ravichandran, M, Schuetz, A, Loppnau, P, Li, F, Mackenzie, F, Kozieradzki, I, Ouyang, H, Structural Genomics Consortium (SGC) | Deposit date: | 2010-11-03 | Release date: | 2011-02-23 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Protein Aggregates Are Recruited to Aggresome by Histone Deacetylase 6 via Unanchored Ubiquitin C Termini. J.Biol.Chem., 287, 2012
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5ZQ6
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![BU of 5zq6 by Molmil](/molmil-images/mine/5zq6) | SidE-Ubi-ADPr | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, SidE, Ubiquitin | Authors: | Wang, Y, Gao, A, Gao, P. | Deposit date: | 2018-04-17 | Release date: | 2018-05-23 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (3.009 Å) | Cite: | Structural Insights into Non-canonical Ubiquitination Catalyzed by SidE. Cell, 173, 2018
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6PZV
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8EB0
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![BU of 8eb0 by Molmil](/molmil-images/mine/8eb0) | RNF216/E2-Ub/Ub transthiolation complex | Descriptor: | E3 ubiquitin-protein ligase RNF216, SULFATE ION, Ubiquitin, ... | Authors: | Cotton, T.R, Wang, X.S, Lechtenberg, B.C. | Deposit date: | 2022-08-30 | Release date: | 2023-01-18 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.03 Å) | Cite: | The unifying catalytic mechanism of the RING-between-RING E3 ubiquitin ligase family. Nat Commun, 14, 2023
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4BOZ
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![BU of 4boz by Molmil](/molmil-images/mine/4boz) | Structure of OTUD2 OTU domain in complex with K11-linked di ubiquitin | Descriptor: | GLYCEROL, UBIQUITIN THIOESTERASE OTU1, UBIQUITIN-C | Authors: | Mevissen, T.E.T, Hospenthal, M.K, Geurink, P.P, Elliott, P.R, Akutsu, M, Arnaudo, N, Ekkebus, R, Kulathu, Y, Wauer, T, El Oualid, F, Freund, S.M.V, Ovaa, H, Komander, D. | Deposit date: | 2013-05-22 | Release date: | 2013-07-17 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (3.03 Å) | Cite: | Otu Deubiquitinases Reveal Mechanisms of Linkage Specificity and Enable Ubiquitin Chain Restriction Analysis. Cell(Cambridge,Mass.), 154, 2013
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6HEK
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![BU of 6hek by Molmil](/molmil-images/mine/6hek) | Structure of human USP28 bound to Ubiquitin-PA | Descriptor: | CHLORIDE ION, Polyubiquitin-B, TETRAETHYLENE GLYCOL, ... | Authors: | Gersch, M, Komander, D. | Deposit date: | 2018-08-20 | Release date: | 2019-03-27 | Last modified: | 2024-01-17 | Method: | X-RAY DIFFRACTION (3.03 Å) | Cite: | Distinct USP25 and USP28 Oligomerization States Regulate Deubiquitinating Activity. Mol.Cell, 74, 2019
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5C7M
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![BU of 5c7m by Molmil](/molmil-images/mine/5c7m) | CRYSTAL STRUCTURE OF E3 LIGASE ITCH WITH A UB VARIANT | Descriptor: | E3 ubiquitin-protein ligase Itchy homolog, Polyubiquitin-C | Authors: | Walker, J.R, Hu, J, Dong, A, Wernimont, A, Zhang, W, Sidhu, S, Bountra, C, Edwards, A.M, Arrowsmith, C.H, Tong, Y, Structural Genomics Consortium (SGC) | Deposit date: | 2015-06-24 | Release date: | 2016-03-16 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (3.03 Å) | Cite: | System-Wide Modulation of HECT E3 Ligases with Selective Ubiquitin Variant Probes. Mol.Cell, 62, 2016
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8HQY
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![BU of 8hqy by Molmil](/molmil-images/mine/8hqy) | Cryo-EM structure of SSX1 bound to the H2AK119Ub nucleosome at a resolution of 3.05 angstrom | Descriptor: | DNA (136-MER), DNA (137-MER), Histone H2A type 1-B/E, ... | Authors: | Zebin, T, Ai, H.S, Ziyu, X, GuoChao, C, Man, P, Liu, L. | Deposit date: | 2022-12-14 | Release date: | 2023-09-27 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.05 Å) | Cite: | Synovial sarcoma X breakpoint 1 protein uses a cryptic groove to selectively recognize H2AK119Ub nucleosomes. Nat.Struct.Mol.Biol., 31, 2024
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8WG5
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![BU of 8wg5 by Molmil](/molmil-images/mine/8wg5) | Cryo-EM structure of USP16 bound to H2AK119Ub nucleosome | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-K, ... | Authors: | Ai, H.S, He, Z.Z, Deng, Z.H, Liu, L. | Deposit date: | 2023-09-20 | Release date: | 2023-12-27 | Last modified: | 2024-07-10 | Method: | ELECTRON MICROSCOPY (3.05 Å) | Cite: | Structural and mechanistic basis for nucleosomal H2AK119 deubiquitination by single-subunit deubiquitinase USP16. Nat.Struct.Mol.Biol., 2024
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8GRM
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![BU of 8grm by Molmil](/molmil-images/mine/8grm) | Cryo-EM structure of PRC1 bound to H2AK119-UbcH5b-Ub nucleosome | Descriptor: | COMMD3 protein, DNA (144-MER), DNA (145-MER), ... | Authors: | Ai, H.S, Zebin, T, Zhihend, D, Jiakun, T, Liying, Z, Jia-Bin, L, Man, P, Liu, L. | Deposit date: | 2022-09-02 | Release date: | 2023-04-12 | Last modified: | 2024-07-03 | Method: | ELECTRON MICROSCOPY (3.05 Å) | Cite: | Synthetic E2-Ub-nucleosome conjugates for studying nucleosome ubiquitination. Chem, 2023
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8G6H
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8EAZ
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![BU of 8eaz by Molmil](/molmil-images/mine/8eaz) | HOIL-1/E2-Ub/Ub transthiolation complex | Descriptor: | RanBP-type and C3HC4-type zinc finger-containing protein 1, Ubiquitin, Ubiquitin-conjugating enzyme E2 L3, ... | Authors: | Wang, X.S, Cotton, T.R, Lechtenberg, B.C. | Deposit date: | 2022-08-30 | Release date: | 2023-01-18 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.08 Å) | Cite: | The unifying catalytic mechanism of the RING-between-RING E3 ubiquitin ligase family. Nat Commun, 14, 2023
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7MC9
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![BU of 7mc9 by Molmil](/molmil-images/mine/7mc9) | X-RAY STRUCTURE OF PEDV PAPAIN-LIKE PROTEASE 2 bound to UB-PA | Descriptor: | 3C-like proteinase, Ubiquitin, ZINC ION, ... | Authors: | Durie, I.A, Dzimianski, J.V, Daczkowski, C.M, Pegan, S.D. | Deposit date: | 2021-04-01 | Release date: | 2021-07-07 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (3.099 Å) | Cite: | Structural insights into the interaction of papain-like protease 2 from the alphacoronavirus porcine epidemic diarrhea virus and ubiquitin Acta Cryst. D, 77, 2021
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7W38
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![BU of 7w38 by Molmil](/molmil-images/mine/7w38) | Structure of USP14-bound human 26S proteasome in state EA2.0_UBL | Descriptor: | 26S protease regulatory subunit 4, 26S protease regulatory subunit 6A, 26S protease regulatory subunit 6B, ... | Authors: | Zhang, S, Zou, S, Yin, D, Wu, Z, Mao, Y. | Deposit date: | 2021-11-25 | Release date: | 2022-05-04 | Last modified: | 2022-06-01 | Method: | ELECTRON MICROSCOPY (3.1 Å) | Cite: | USP14-regulated allostery of the human proteasome by time-resolved cryo-EM. Nature, 605, 2022
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6EQI
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![BU of 6eqi by Molmil](/molmil-images/mine/6eqi) | Structure of PINK1 bound to ubiquitin | Descriptor: | GLYCEROL, Nb696, Serine/threonine-protein kinase PINK1, ... | Authors: | Schubert, A.F, Gladkova, C, Pardon, E, Wagstaff, J.L, Freund, S.M.V, Steyaert, J, Maslen, S, Komander, D. | Deposit date: | 2017-10-13 | Release date: | 2017-11-08 | Last modified: | 2024-01-17 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Structure of PINK1 in complex with its substrate ubiquitin. Nature, 552, 2017
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4LCD
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3JW0
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![BU of 3jw0 by Molmil](/molmil-images/mine/3jw0) | E2~Ubiquitin-HECT | Descriptor: | E3 ubiquitin-protein ligase NEDD4-like, Ubiquitin, Ubiquitin-conjugating enzyme E2 D2 | Authors: | Kamadurai, H.B, Schulman, B.A. | Deposit date: | 2009-09-17 | Release date: | 2010-01-12 | Last modified: | 2021-10-13 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Insights into ubiquitin transfer cascades from a structure of a UbcH5B approximately ubiquitin-HECT(NEDD4L) complex. Mol.Cell, 36, 2009
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7K6Q
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![BU of 7k6q by Molmil](/molmil-images/mine/7k6q) | Active state Dot1 bound to the H4K16ac nucleosome | Descriptor: | DNA (146-MER), Histone H2A type 1, Histone H2B 1.1, ... | Authors: | Valencia-Sanchez, M.I, De Ioannes, P.E, Miao, W, Truong, D.M, Lee, R, Armache, J.-P, Boeke, J.D, Armache, K.-J. | Deposit date: | 2020-09-21 | Release date: | 2021-02-10 | Method: | ELECTRON MICROSCOPY (3.1 Å) | Cite: | Regulation of the Dot1 histone H3K79 methyltransferase by histone H4K16 acetylation. Science, 371, 2021
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7E8I
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![BU of 7e8i by Molmil](/molmil-images/mine/7e8i) | Structural insight into BRCA1-BARD1 complex recruitment to damaged chromatin | Descriptor: | BRCA1-associated RING domain protein 1, DNA (145-MER), Histone H2A, ... | Authors: | Dai, Y, Dai, L, Zhou, Z. | Deposit date: | 2021-03-01 | Release date: | 2021-06-30 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (3.1 Å) | Cite: | Structural insight into BRCA1-BARD1 complex recruitment to damaged chromatin. Mol.Cell, 81, 2021
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5YIK
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![BU of 5yik by Molmil](/molmil-images/mine/5yik) | |