6TTU
| Ubiquitin Ligation to substrate by a cullin-RING E3 ligase at 3.7A resolution: NEDD8-CUL1-RBX1 N98R-SKP1-monomeric b-TRCP1dD-IkBa-UB~UBE2D2 | Descriptor: | CYS-LYS-LYS-ALA-ARG-HIS-ASP-SEP-GLY, Cullin-1, E3 ubiquitin-protein ligase RBX1, ... | Authors: | Baek, K, Prabu, J.R, Schulman, B.A. | Deposit date: | 2019-12-30 | Release date: | 2020-02-12 | Last modified: | 2020-03-04 | Method: | ELECTRON MICROSCOPY (3.7 Å) | Cite: | NEDD8 nucleates a multivalent cullin-RING-UBE2D ubiquitin ligation assembly. Nature, 578, 2020
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8RX0
| (NEDD8)-CRL2VHL-MZ1-Brd4BD2-Ub(G76S, K48C)-UBE2R1(C93K, S138C, C191S, C223S)-Ub | 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, Cullin-2, Elongin-B, ... | Authors: | Crowe, C, Nakasone, M.A. | Deposit date: | 2024-02-05 | Release date: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.7 Å) | Cite: | (NEDD8)-CRL2VHL-MZ1-Brd4BD2-Ub(G76S, K48C)-UBE2R1(C93K, S138C, C191S, C223S)-Ub To Be Published
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4NQK
| Structure of an Ubiquitin complex | Descriptor: | Probable ATP-dependent RNA helicase DDX58, Ubiquitin | Authors: | Peisley, A, Wu, B, Hur, S. | Deposit date: | 2013-11-25 | Release date: | 2014-03-05 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (3.7 Å) | Cite: | Structural basis for ubiquitin-mediated antiviral signal activation by RIG-I. Nature, 509, 2014
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8Q7R
| Ubiquitin ligation to substrate by a cullin-RING E3 ligase & Cdc34: NEDD8-CUL2-RBX1-ELOB/C-FEM1C with trapped UBE2R2~donor UB-Sil1 peptide | Descriptor: | 5-azanyl-1-oxidanyl-pentan-2-one, Cullin-2, E3 ubiquitin-protein ligase RBX1, ... | Authors: | Liwocha, J, Prabu, J.R, Kleiger, G, Schulman, B.A. | Deposit date: | 2023-08-16 | Release date: | 2024-02-21 | Last modified: | 2024-04-24 | Method: | ELECTRON MICROSCOPY (3.71 Å) | Cite: | Cullin-RING ligases employ geometrically optimized catalytic partners for substrate targeting. Mol.Cell, 84, 2024
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8PQL
| K48-linked ubiquitin chain formation with a cullin-RING E3 ligase and Cdc34: NEDD8-CUL2-RBX1-ELOB/C-FEM1C with trapped UBE2R2-donor UB-acceptor UB-SIL1 peptide | Descriptor: | 5-azanylpentan-2-one, Cullin-2, E3 ubiquitin-protein ligase RBX1, ... | Authors: | Liwocha, J, Prabu, J.R, Kleiger, G, Schulman, B.A. | Deposit date: | 2023-07-11 | Release date: | 2024-02-14 | Last modified: | 2024-04-17 | Method: | ELECTRON MICROSCOPY (3.76 Å) | Cite: | Mechanism of millisecond Lys48-linked poly-ubiquitin chain formation by cullin-RING ligases. Nat.Struct.Mol.Biol., 31, 2024
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7B5L
| Ubiquitin ligation to F-box protein substrates by SCF-RBR E3-E3 super-assembly: NEDD8-CUL1-RBX1-SKP1-SKP2-CKSHS1-Cyclin A-CDK2-p27-UBE2L3~Ub~ARIH1. Transition State 1 | Descriptor: | 5-azanylpentan-2-one, Cullin-1, Cyclin-A2, ... | Authors: | Horn-Ghetko, D, Prabu, J.R, Schulman, B.A. | Deposit date: | 2020-12-04 | Release date: | 2021-02-10 | Last modified: | 2021-03-10 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | Ubiquitin ligation to F-box protein targets by SCF-RBR E3-E3 super-assembly. Nature, 590, 2021
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5OHM
| K33-specific affimer bound to K33 diUb | Descriptor: | K33-specific affimer, POLYETHYLENE GLYCOL (N=34), Polyubiquitin-C | Authors: | Michel, M.A, Komander, D. | Deposit date: | 2017-07-17 | Release date: | 2017-10-04 | Last modified: | 2024-01-17 | Method: | X-RAY DIFFRACTION (3.8 Å) | Cite: | Ubiquitin Linkage-Specific Affimers Reveal Insights into K6-Linked Ubiquitin Signaling. Mol. Cell, 68, 2017
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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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4DDI
| Crystal structure of human OTUB1/UbcH5b~Ub/Ub | Descriptor: | Polyubiquitin-C, Ubiquitin-conjugating enzyme E2 D2, Ubiquitin thioesterase OTUB1 | Authors: | Juang, Y.C, Sanches, M, Sicheri, F. | Deposit date: | 2012-01-18 | Release date: | 2012-02-22 | Last modified: | 2017-11-15 | Method: | X-RAY DIFFRACTION (3.802 Å) | Cite: | OTUB1 Co-opts Lys48-Linked Ubiquitin Recognition to Suppress E2 Enzyme Function. Mol.Cell, 45, 2012
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6VAF
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7B5M
| Ubiquitin ligation to F-box protein substrates by SCF-RBR E3-E3 super-assembly: CUL1-RBX1-SKP1-SKP2-CKSHS1-p27~Ub~ARIH1. Transition State 2 | Descriptor: | Cullin-1, Cyclin-dependent kinase inhibitor 1B, Cyclin-dependent kinases regulatory subunit 1, ... | Authors: | Horn-Ghetko, D, Prabu, J.R, Schulman, B.A. | Deposit date: | 2020-12-05 | Release date: | 2021-02-17 | Last modified: | 2021-03-10 | Method: | ELECTRON MICROSCOPY (3.91 Å) | Cite: | Ubiquitin ligation to F-box protein targets by SCF-RBR E3-E3 super-assembly. Nature, 590, 2021
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7TV4
| Crystal structure of NEMO CoZi in complex with HOIP NZF1 and linear diubiquitin | Descriptor: | E3 ubiquitin-protein ligase RNF31, NF-kappa-B essential modulator, Polyubiquitin-C, ... | Authors: | Rahighi, S, Iyer, M, Oveisi, H. | Deposit date: | 2022-02-03 | Release date: | 2022-08-17 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (4.2 Å) | Cite: | Structural basis for the simultaneous recognition of NEMO and acceptor ubiquitin by the HOIP NZF1 domain. Sci Rep, 12, 2022
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6WJD
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5A5B
| Structure of the 26S proteasome-Ubp6 complex | Descriptor: | 26S PROTEASE REGULATORY SUBUNIT 4 HOMOLOG, 26S PROTEASE REGULATORY SUBUNIT 6A, 26S PROTEASE REGULATORY SUBUNIT 6B HOMOLOG, ... | Authors: | Aufderheide, A, Beck, F, Stengel, F, Hartwig, M, Schweitzer, A, Pfeifer, G, Goldberg, A.L, Sakata, E, Baumeister, W, Foerster, F. | Deposit date: | 2015-06-17 | Release date: | 2015-07-22 | Last modified: | 2017-08-30 | Method: | ELECTRON MICROSCOPY (9.5 Å) | Cite: | Structural Characterization of the Interaction of Ubp6 with the 26S Proteasome. Proc.Natl.Acad.Sci.USA, 112, 2015
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2K25
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2LVO
| Structure of the gp78CUE domain bound to monubiquitin | Descriptor: | E3 ubiquitin-protein ligase AMFR, Ubiquitin | Authors: | Liu, S, Chen, Y, Huang, T, Tarasov, S.G, King, A, Li, J, Weissman, A.M, Byrd, R.A, Das, R. | Deposit date: | 2012-07-09 | Release date: | 2012-11-21 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Promiscuous Interactions of gp78 E3 Ligase CUE Domain with Polyubiquitin Chains. Structure, 20, 2012
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2JRI
| Solution structure of the Josephin domain of Ataxin-3 in complex with ubiquitin molecule. | Descriptor: | Ataxin-3, UBC protein | Authors: | Nicastro, G, Masino, L, Esposito, V, Menon, R, Pastore, A. | Deposit date: | 2007-06-27 | Release date: | 2008-07-01 | Last modified: | 2024-05-29 | Method: | SOLUTION NMR | Cite: | Understanding the plasticity of the ubiquitin-protein recognition code: the josephin domain of ataxin-3 is a diubiquitin binding motif To be Published
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2MBO
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2Z59
| Complex Structures of Mouse Rpn13 (22-130aa) and ubiquitin | Descriptor: | Protein ADRM1, Ubiquitin | Authors: | Chen, X, Schreiner, P, Groll, M, Walters, K.J. | Deposit date: | 2007-07-01 | Release date: | 2008-05-20 | Last modified: | 2024-05-29 | Method: | SOLUTION NMR | Cite: | Ubiquitin docking at the proteasome through a novel pleckstrin-homology domain interaction. Nature, 453, 2008
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2MBQ
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2LZ6
| Distinct ubiquitin binding modes exhibited by sh3 domains: molecular determinants and functional implications | Descriptor: | CD2-associated protein, Ubiquitin | Authors: | Ortega-Roldan, J, Azuaga, A, Blackledge, M, Van Nuland, N. | Deposit date: | 2012-09-24 | Release date: | 2013-10-02 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Distinct Ubiquitin Binding Modes Exhibited by SH3 Domains: Molecular Determinants and Functional Implications. Plos One, 8, 2013
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1UD7
| SOLUTION STRUCTURE OF THE DESIGNED HYDROPHOBIC CORE MUTANT OF UBIQUITIN, 1D7 | Descriptor: | PROTEIN (UBIQUITIN CORE MUTANT 1D7) | Authors: | Johnson, E.C, Lazar, G.A, Desjarlais, J.R, Handel, T.M. | Deposit date: | 1999-04-07 | Release date: | 1999-05-06 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Solution structure and dynamics of a designed hydrophobic core variant of ubiquitin. Structure Fold.Des., 7, 1999
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2RR9
| The solution structure of the K63-Ub2:tUIMs complex | Descriptor: | Putative uncharacterized protein UIMC1, ubiquitin | Authors: | Sekiyama, N, Jee, J, Isogai, S, Akagi, K, Huang, T, Ariyoshi, M, Tochio, H, Shirakawa, M. | Deposit date: | 2010-06-16 | Release date: | 2011-07-06 | Last modified: | 2011-07-13 | Method: | SOLUTION NMR | Cite: | The solution structure of the K63-Ub2:tUIMs complex To be Published
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2MI8
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2JZZ
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