8SNA
 
 | | Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c with backside ubiquitin (UbcH5c chemically conjugated to histone H2A) (class 2) | | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-04-26 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | ELECTRON MICROSCOPY (4 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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7UD5
 | | Complex between MLL1-WRAD and an H2B-ubiquitinated nucleosome | | Descriptor: | 601 DNA (146-MER), Histone H2A, Histone H2B 1.1, ... | | Authors: | Niklas, H.A, Rahman, S, Worden, E.J, Wolberger, C. | | Deposit date: | 2022-03-18 | | Release date: | 2022-09-21 | | Last modified: | 2022-10-05 | | Method: | ELECTRON MICROSCOPY (4.25 Å) | | Cite: | Multistate structures of the MLL1-WRAD complex bound to H2B-ubiquitinated nucleosome.
Proc.Natl.Acad.Sci.USA, 119, 2022
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6FTX
 | | Structure of the chromatin remodelling enzyme Chd1 bound to a ubiquitinylated nucleosome | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Chromatin-remodeling ATPase, ... | | Authors: | Sundaramoorthy, R, Owen-hughes, T, Norman, D.G, Hughes, A. | | Deposit date: | 2018-02-25 | | Release date: | 2018-08-08 | | Last modified: | 2018-10-17 | | Method: | ELECTRON MICROSCOPY (4.5 Å) | | Cite: | Structure of the chromatin remodelling enzyme Chd1 bound to a ubiquitinylated nucleosome.
Elife, 7, 2018
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5GJQ
 | | Structure of the human 26S proteasome bound to USP14-UbAl | | Descriptor: | 26S protease regulatory subunit 10B, 26S protease regulatory subunit 4, 26S protease regulatory subunit 6A, ... | | Authors: | Huang, X.L, Luan, B, Wu, J.P, Shi, Y.G. | | Deposit date: | 2016-07-01 | | Release date: | 2016-08-17 | | Last modified: | 2019-11-06 | | Method: | ELECTRON MICROSCOPY (4.5 Å) | | Cite: | An atomic structure of the human 26S proteasome.
Nat. Struct. Mol. Biol., 23, 2016
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5KGF
 | | Structural model of 53BP1 bound to a ubiquitylated and methylated nucleosome, at 4.5 A resolution | | Descriptor: | DNA (145-MER), Histone H2A type 1, Histone H2B type 1-C/E/F/G/I, ... | | Authors: | Wilson, M.D, Benlekbir, S, Sicheri, F, Rubinstein, J.L, Durocher, D. | | Deposit date: | 2016-06-13 | | Release date: | 2016-07-27 | | Last modified: | 2020-01-15 | | Method: | ELECTRON MICROSCOPY (4.54 Å) | | Cite: | The structural basis of modified nucleosome recognition by 53BP1.
Nature, 536, 2016
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7QO5
 | | 26S proteasome Rpt1-RK -Ubp6-UbVS complex in the si state | | Descriptor: | 26S proteasome complex subunit SEM1, 26S proteasome regulatory subunit 4 homolog, 26S proteasome regulatory subunit 6A, ... | | Authors: | Hung, K.Y.S, Klumpe, S, Eisele, M.R, Elsasser, S, Geng, T.T, Cheng, T.C, Joshi, T, Rudack, T, Sakata, E, Finley, D. | | Deposit date: | 2021-12-23 | | Release date: | 2022-03-16 | | Last modified: | 2023-03-15 | | Method: | ELECTRON MICROSCOPY (6 Å) | | Cite: | Allosteric control of Ubp6 and the proteasome via a bidirectional switch.
Nat Commun, 13, 2022
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7QO6
 | | 26S proteasome Rpt1-RK -Ubp6-UbVS complex in the s2 state | | Descriptor: | 26S proteasome complex subunit SEM1, 26S proteasome regulatory subunit 4 homolog, 26S proteasome regulatory subunit 6A, ... | | Authors: | Hung, K.Y.S, Klumpe, S, Eisele, M.R, Elsasser, S, Geng, T.T, Cheng, T.C, Joshi, T, Rudack, T, Sakata, E, Finley, D. | | Deposit date: | 2021-12-23 | | Release date: | 2022-03-16 | | Last modified: | 2022-07-20 | | Method: | ELECTRON MICROSCOPY (6.3 Å) | | Cite: | Allosteric control of Ubp6 and the proteasome via a bidirectional switch.
Nat Commun, 13, 2022
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5L9T
 | | Model of human Anaphase-promoting complex/Cyclosome (APC/C-CDH1) with E2 UBE2S poised for polyubiquitination where UBE2S, APC2, and APC11 are modeled into low resolution density | | Descriptor: | Anaphase-promoting complex subunit 1, Anaphase-promoting complex subunit 10, Anaphase-promoting complex subunit 11, ... | | Authors: | Brown, N.G, VanderLinden, R, Dube, P, Haselbach, D, Peters, J.M, Stark, H, Schulman, B.A. | | Deposit date: | 2016-06-11 | | Release date: | 2016-10-26 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (6.4 Å) | | Cite: | Dual RING E3 Architectures Regulate Multiubiquitination and Ubiquitin Chain Elongation by APC/C.
Cell, 165, 2016
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6JMA
 | | cryo-EM structure of DOT1L bound to H2B ubiquitinated nucleosome | | Descriptor: | DNA I&J, Histone H2A, Histone H2B 1.1, ... | | Authors: | Jang, S, Song, J.J. | | Deposit date: | 2019-03-07 | | Release date: | 2019-05-15 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (6.8 Å) | | Cite: | Structural basis of recognition and destabilization of the histone H2B ubiquitinated nucleosome by the DOT1L histone H3 Lys79 methyltransferase.
Genes Dev., 33, 2019
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7QO4
 | | 26S proteasome WT-Ubp6-UbVS complex in the si state (ATPases, Rpn1, Ubp6, and UbVS) | | Descriptor: | 26S proteasome regulatory subunit RPN1, ADENOSINE-5'-DIPHOSPHATE, ADENOSINE-5'-TRIPHOSPHATE, ... | | Authors: | Hung, K.Y.S, Klumpe, S, Eisele, M.R, Elsasser, S, Geng, T.T, Cheng, C, Joshi, T, Rudack, T, Sakata, E, Finley, D. | | Deposit date: | 2021-12-23 | | Release date: | 2022-06-01 | | Method: | ELECTRON MICROSCOPY (7 Å) | | Cite: | Allosteric control of Ubp6 and the proteasome via a bidirectional switch.
Nat Commun, 13, 2022
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4WHV
 | | E3 ubiquitin-protein ligase RNF8 in complex with Ubiquitin-conjugating enzyme E2 N and Polyubiquitin-B | | Descriptor: | E3 ubiquitin-protein ligase RNF8, Polyubiquitin-B, Ubiquitin-conjugating enzyme E2 N, ... | | Authors: | Hodge, C.D, Edwards, R.A, Glover, J.N.M. | | Deposit date: | 2014-09-23 | | Release date: | 2015-09-30 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (8.3 Å) | | Cite: | RNF8 E3 Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment.
J.Biol.Chem., 291, 2016
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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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6UD0
 | | Solution-state NMR structural ensemble of human Tsg101 UEV in complex with K63-linked diubiquitin | | Descriptor: | Tumor susceptibility gene 101 protein, Ubiquitin | | Authors: | Strickland, M, Watanabe, S, Bonn, S.M, Camara, C.M, Fushman, D, Carter, C.A, Tjandra, N. | | Deposit date: | 2019-09-18 | | Release date: | 2021-03-17 | | Last modified: | 2023-06-14 | | Method: | SOLUTION NMR | | Cite: | Tsg101/ESCRT-I Recruitment Regulated by the Dual Binding Modes of K63-Linked Diubiquitin
Structure, 2021
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5XBO
 | | Lanthanoid tagging via an unnatural amino acid for protein structure characterization | | Descriptor: | Polyubiquitin-B, TERBIUM(III) ION, UV excision repair protein RAD23 homolog A | | Authors: | Jiang, W, Gu, X, Dong, X, Tang, C. | | Deposit date: | 2017-03-21 | | Release date: | 2017-05-31 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | Lanthanoid tagging via an unnatural amino acid for protein structure characterization
J. Biomol. NMR, 67, 2017
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5VF0
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6UYJ
 | | hRpn13:hRpn2:K48-diubiquitin | | Descriptor: | 26S proteasome non-ATPase regulatory subunit 1, Proteasomal ubiquitin receptor ADRM1, Ubiquitin | | Authors: | Lu, X, Walters, K.J. | | Deposit date: | 2019-11-13 | | Release date: | 2020-03-11 | | Last modified: | 2020-05-20 | | Method: | SOLUTION NMR | | Cite: | An Extended Conformation for K48 Ubiquitin Chains Revealed by the hRpn2:Rpn13:K48-Diubiquitin Structure.
Structure, 28, 2020
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6KOW
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5XK4
 | | Retracted state of S65-phosphorylated ubiquitin | | Descriptor: | Polyubiquitin-B | | Authors: | Dong, X, Gong, Z, Qin, L.Y, Ran, M.L, Zhang, C.L, Liu, K, Liu, Z, Zhang, W.P, Tang, C. | | Deposit date: | 2017-05-05 | | Release date: | 2017-06-28 | | Last modified: | 2023-06-14 | | Method: | SOLUTION NMR | | Cite: | Ubiquitin S65 phosphorylation engenders a pH-sensitive conformational switch
Proc. Natl. Acad. Sci. U.S.A., 114, 2017
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5XK5
 | | Relaxed state of S65-phosphorylated ubiquitin | | Descriptor: | Polyubiquitin-B | | Authors: | Xu, D, Zhou, G, Qin, L.Y, Ran, M.L, Zhang, C.L, Liu, K, Liu, Z, Zhang, W.P, Tang, C. | | Deposit date: | 2017-05-05 | | Release date: | 2017-06-28 | | Last modified: | 2023-06-14 | | Method: | SOLUTION NMR | | Cite: | Ubiquitin S65 phosphorylation engenders a pH-sensitive conformational switch
Proc. Natl. Acad. Sci. U.S.A., 114, 2017
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6OQ2
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6XQC
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6UYI
 | | hRpn13:hRpn2:K48-diubiquitin | | Descriptor: | 26S proteasome non-ATPase regulatory subunit 1, Proteasomal ubiquitin receptor ADRM1, Ubiquitin | | Authors: | Lu, X, Walters, K.J. | | Deposit date: | 2019-11-13 | | Release date: | 2020-03-11 | | Last modified: | 2022-03-16 | | Method: | SOLUTION NMR | | Cite: | An Extended Conformation for K48 Ubiquitin Chains Revealed by the hRpn2:Rpn13:K48-Diubiquitin Structure.
Structure, 28, 2020
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2MBB
 | | Solution Structure of the human Polymerase iota UBM1-Ubiquitin Complex | | Descriptor: | Immunoglobulin G-binding protein G/DNA polymerase iota fusion protein, Polyubiquitin-B | | Authors: | Wang, S, Zhou, P. | | Deposit date: | 2013-07-29 | | Release date: | 2014-06-04 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | Sparsely-sampled, high-resolution 4-D omit spectra for detection and assignment of intermolecular NOEs of protein complexes.
J.Biomol.Nmr, 59, 2014
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2MBH
 | | NMR structure of EKLF(22-40)/Ubiquitin Complex | | Descriptor: | Krueppel-like factor 1, Ubiquitin | | Authors: | Raiola, L, Omichinski, J.G. | | Deposit date: | 2013-07-31 | | Release date: | 2013-10-09 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | Structural Characterization of a Noncovalent Complex between Ubiquitin and the Transactivation Domain of the Erythroid-Specific Factor EKLF.
Structure, 21, 2013
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5YMY
 | | The structure of the complex between Rpn13 and K48-diUb | | Descriptor: | Proteasomal ubiquitin receptor ADRM1, Ubiquitin | | Authors: | Liu, Z, Dong, X, Gong, Z, Yi, H.W, Liu, K, Yang, J, Zhang, W.P, Tang, C. | | Deposit date: | 2017-10-22 | | Release date: | 2019-03-13 | | Last modified: | 2019-04-24 | | Method: | SOLUTION NMR | | Cite: | Structural basis for the recognition of K48-linked Ub chain by proteasomal receptor Rpn13.
Cell Discov, 5, 2019
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