1SIF
 
 | | Crystal structure of a multiple hydrophobic core mutant of ubiquitin | | Descriptor: | ubiquitin | | Authors: | Benitez-Cardoza, C.G, Stott, K, Hirshberg, M, Went, H.M, Woolfson, D.N, Jackson, S.E. | | Deposit date: | 2004-02-29 | | Release date: | 2004-07-27 | | Last modified: | 2023-08-23 | | Method: | X-RAY DIFFRACTION (2.18 Å) | | Cite: | Exploring sequence/folding space: folding studies on multiple hydrophobic core mutants of ubiquitin
Biochemistry, 43, 2004
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7NPO
 | | Branched K48-K63-Ub3 | | Descriptor: | GLYCEROL, Polyubiquitin-B | | Authors: | Lange, S.M, Kwasna, D, Kulathu, Y. | | Deposit date: | 2021-02-27 | | Release date: | 2022-08-10 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.19 Å) | | Cite: | Branched Lys48-Lys63-linked triubiquitin
To be published
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3NOB
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5X3O
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8DMQ
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5IFR
 | | Structure of the stable UBE2D3-UbDha conjugate | | Descriptor: | GLYCEROL, Polyubiquitin-B, Ubiquitin-conjugating enzyme E2 D3 | | Authors: | Pruneda, J.N, Mulder, M.P.C, Witting, K, Ovaa, H, Komander, D. | | Deposit date: | 2016-02-26 | | Release date: | 2016-05-11 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | A cascading activity-based probe sequentially targets E1-E2-E3 ubiquitin enzymes.
Nat.Chem.Biol., 12, 2016
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2XEW
 | | Crystal structure of K11-linked diubiquitin | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, CITRATE ANION, ... | | Authors: | Bremm, A, Freund, S.M.V, Komander, D. | | Deposit date: | 2010-05-18 | | Release date: | 2010-07-14 | | Last modified: | 2023-12-20 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Lys11-Linked Ubiquitin Chains Adopt Compact Conformations and are Preferentially Hydrolyzed by the Deubiquitinase Cezanne
Nat.Struct.Mol.Biol., 17, 2010
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6OQ1
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7BBD
 | | Crystal structure of monoubiquitinated TRIM21 RING (Ub-RING) In complex with ubiquitin charged Ube2N (Ube2N~Ub) and Ube2V2 | | Descriptor: | Polyubiquitin-B,E3 ubiquitin-protein ligase TRIM21, Polyubiquitin-C, Ubiquitin-conjugating enzyme E2 N, ... | | Authors: | Kiss, L, Neuhaus, D, James, L.C. | | Deposit date: | 2020-12-17 | | Release date: | 2021-01-27 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | RING domains act as both substrate and enzyme in a catalytic arrangement to drive self-anchored ubiquitination.
Nat Commun, 12, 2021
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3A33
 | | UbcH5b~Ubiquitin Conjugate | | Descriptor: | GLYCEROL, Ubiquitin, Ubiquitin-conjugating enzyme E2 D2 | | Authors: | Sakata, E, Satoh, T, Yamamoto, S, Yamaguchi, Y, Yagi-Utsumi, M, Kurimoto, E, Wakatsuki, S, Kato, K. | | Deposit date: | 2009-06-08 | | Release date: | 2009-11-24 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Crystal Structure of UbcH5b~Ubiquitin Intermediate: Insight into the Formation of the Self-Assembled E2~Ub Conjugates
Structure, 18, 2010
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2O6V
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2IBI
 | | Covalent Ubiquitin-USP2 Complex | | Descriptor: | ETHANAMINE, Ubiquitin, Ubiquitin carboxyl-terminal hydrolase 2, ... | | Authors: | Walker, J.R, Avvakumov, G.V, Bernstein, G, Xue, S, Finerty Jr, P.J, MacKenzie, F, Weigelt, J, Sundstrom, M, Arrowsmith, C.H, Edwards, A.M, Bochkarev, A, Dhe-Paganon, S, Structural Genomics Consortium (SGC) | | Deposit date: | 2006-09-11 | | Release date: | 2006-10-24 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Covalent Ubiquitin-USP2 Complex
To be Published
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5GO8
 | | Linear tetra-ubiquitin | | Descriptor: | D-ubiquitin, ubiquitin | | Authors: | Gao, S, Pan, M, Zheng, Y. | | Deposit date: | 2016-07-26 | | Release date: | 2016-11-02 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (2.21 Å) | | Cite: | Monomer/Oligomer Quasi-Racemic Protein Crystallography
J.Am.Chem.Soc., 138, 2016
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6QK9
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8CMR
 | | Linear specific OTU-type DUB SnOTU from the pathogen S. negenvensis in complex with linear di-ubiquitin | | Descriptor: | OTU domain-containing protein, Polyubiquitin-B | | Authors: | Uthoff, M, Hermanns, T, Boll, V, Hofmann, K, Baumann, U. | | Deposit date: | 2023-02-21 | | Release date: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.24 Å) | | Cite: | Functional and structural diversity in deubiquitinases of the Chlamydia-like bacterium Simkania negevensis.
Nat Commun, 14, 2023
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2W9N
 | | crystal structure of linear di-ubiquitin | | Descriptor: | CHLORIDE ION, UBIQUITIN, ZINC ION | | Authors: | Komander, D, Reyes-Turcu, F, Wilkinson, K.D, Barford, D. | | Deposit date: | 2009-01-27 | | Release date: | 2009-04-28 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Molecular Discrimination of Structurally Equivalent Lys 63-Linked and Linear Polyubiquitin Chains.
Embo Rep., 10, 2009
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5XPK
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5VZW
 | | TRIM23 RING domain in complex with UbcH5-Ub | | Descriptor: | E3 ubiquitin-protein ligase TRIM23, Ubiquitin, Ubiquitin-conjugating enzyme E2 D2, ... | | Authors: | Pornillos, O, Dawidziak, D. | | Deposit date: | 2017-05-29 | | Release date: | 2017-08-09 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (2.278 Å) | | Cite: | Structure and catalytic activation of the TRIM23 RING E3 ubiquitin ligase.
Proteins, 85, 2017
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2WDT
 | | Crystal structure of Plasmodium falciparum UCHL3 in complex with the suicide inhibitor UbVME | | Descriptor: | CHLORIDE ION, UBIQUITIN, UBIQUITIN CARBOXYL-TERMINAL HYDROLASE L3 | | Authors: | Weihofen, W.A, Artavanis-Tsakonas, K, Gaudet, R, Ploegh, H.L. | | Deposit date: | 2009-03-26 | | Release date: | 2009-12-29 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Characterization and Structural Studies of the Plasmodium Falciparum Ubiquitin and Nedd8 Hydrolase Uchl3.
J.Biol.Chem., 285, 2010
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6PGV
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3ZNH
 | | Crimean Congo Hemorrhagic Fever Virus OTU domain in complex with ubiquitin-propargyl. | | Descriptor: | POLYUBIQUITIN-B, UBIQUITIN THIOESTERASE | | Authors: | Ekkebus, R, vanKasteren, S.I, Kulathu, Y, Scholten, A, Berlin, I, deJong, A, Goerdayal, G, Neefjes, J, Heck, A.J.R, Komander, D, Ovaa, H. | | Deposit date: | 2013-02-14 | | Release date: | 2013-02-27 | | Last modified: | 2023-12-20 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | On Terminal Alkynes that Can React with Active-Site Cysteine Nucleophiles in Proteases.
J.Am.Chem.Soc., 135, 2013
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3H7S
 | | Crystal structures of K63-linked di- and tri-ubiquitin reveal a highly extended chain architecture | | Descriptor: | Ubiquitin, ZINC ION | | Authors: | Weeks, S.D, Grasty, K.C, Hernandez-Cuebas, L, Loll, P.J. | | Deposit date: | 2009-04-28 | | Release date: | 2009-09-22 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal structures of Lys-63-linked tri- and di-ubiquitin reveal a highly extended chain architecture.
Proteins, 77, 2009
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6XZ1
 | | Conjugate of the HECT domain of HUWE1 with ubiquitin | | Descriptor: | HECT, UBA and WWE domain containing 1, isoform CRA_a, ... | | Authors: | Liu, B, Seenivasan, A, Nair, R, Chen, D, Lowe, E.D, Lorenz, S. | | Deposit date: | 2020-01-31 | | Release date: | 2021-08-25 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Reconstitution and Structural Analysis of a HECT Ligase-Ubiquitin Complex via an Activity-Based Probe.
Acs Chem.Biol., 16, 2021
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1NBF
 | | Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde | | Descriptor: | Ubiquitin aldehyde, Ubiquitin carboxyl-terminal hydrolase 7 | | Authors: | Hu, M, Li, P, Li, M, Li, W, Yao, T, Wu, J.-W, Gu, W, Cohen, R.E, Shi, Y. | | Deposit date: | 2002-12-02 | | Release date: | 2003-01-07 | | Last modified: | 2018-10-03 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde
Cell(Cambridge,Mass.), 111, 2002
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4UEL
 | | UCH-L5 in complex with ubiquitin-propargyl bound to the RPN13 DEUBAD domain | | Descriptor: | POLYUBIQUITIN-B, PROTEASOMAL UBIQUITIN RECEPTOR ADRM1, UBIQUITIN CARBOXYL-TERMINAL HYDROLASE ISOZYME L5 | | Authors: | Sahtoe, D.D, Van Dijk, W.J, El Oualid, F, Ekkebus, R, Ovaa, H, Sixma, T.K. | | Deposit date: | 2014-12-18 | | Release date: | 2015-03-04 | | Last modified: | 2019-04-03 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Mechanism of Uch-L5 Activation and Inhibition by Deubad Domains in Rpn13 and Ino80G.
Mol.Cell, 57, 2015
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