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2UCZ	UBIQUITIN CONJUGATING ENZYME (UBC7) FROM SACCHAROMYCES CEREVISIAE Descriptor: UBIQUITIN CONJUGATING ENZYME Authors: Cook, W.J, Chau, V. Deposit date: 1997-11-07 Release date: 1998-03-18 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (2.93 Å) Cite: Crystal structure of a class I ubiquitin conjugating enzyme (Ubc7) from Saccharomyces cerevisiae at 2.9 angstroms resolution. Biochemistry, 36, 1997
9B5R	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 3 map and model (ATP/Mg) Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Method: ELECTRON MICROSCOPY (2.95 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway To be published
9B5Q	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 2 map and model (ATP/Mg) Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Method: ELECTRON MICROSCOPY (2.95 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway To be published
9B5S	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 4 map and model (ATP/Mg) Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Method: ELECTRON MICROSCOPY (2.96 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway To be published
3W31	Structual basis for the recognition of Ubc13 by the Shigella flexneri effector OspI Descriptor: IODIDE ION, ORF169b, Ubiquitin-conjugating enzyme E2 N Authors: Nishide, A, Kim, M, Takagi, K, Sasakawa, C, Mizushima, T. Deposit date: 2012-12-07 Release date: 2013-03-27 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.96 Å) Cite: Structural basis for the recognition of Ubc13 by the Shigella flexneri effector OspI. J.Mol.Biol., 425, 2013
8JWJ	PHD Finger Protein 7 (PHF7) in complex with UBE2D2 Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, GLYCEROL, PHD finger protein 7, ... Authors: Lee, H.S, Bang, I, Choi, H.-J. Deposit date: 2023-06-29 Release date: 2023-12-20 Last modified: 2024-01-10 Method: X-RAY DIFFRACTION (2.96 Å) Cite: Molecular basis for PHF7-mediated ubiquitination of histone H3. Genes Dev., 37, 2023
8E2G	Cryo-EM structure of N-terminal arm (aa68-966) of BIRC6 (from local refinement 3) Descriptor: Baculoviral IAP repeat-containing protein 6 Authors: Hunkeler, M, Fischer, E.S. Deposit date: 2022-08-15 Release date: 2023-02-15 Last modified: 2024-06-12 Method: ELECTRON MICROSCOPY (2.99 Å) Cite: Structures of BIRC6-client complexes provide a mechanism of SMAC-mediated release of caspases. Science, 379, 2023
7MYF	Ubiquitin variant UbV.k.1 in complex with Ube2k Descriptor: Ubiquitin, Ubiquitin variant UbV.k.1, Ubiquitin-conjugating enzyme E2 K Authors: Middleton, A.J, Day, C.L, Teyra, J, Sidhu, S.S. Deposit date: 2021-05-21 Release date: 2021-08-25 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (3 Å) Cite: Identification of Ubiquitin Variants That Inhibit the E2 Ubiquitin Conjugating Enzyme, Ube2k. Acs Chem.Biol., 16, 2021
8ATO	Structure of the giant inhibitor of apoptosis, BIRC6 bound to the regulator SMAC Descriptor: Baculoviral IAP repeat-containing protein 6, Diablo IAP-binding mitochondrial protein Authors: Dietz, L, Elliott, P.R. Deposit date: 2022-08-23 Release date: 2023-03-08 Last modified: 2023-03-29 Method: ELECTRON MICROSCOPY (3 Å) Cite: Structural basis for SMAC-mediated antagonism of caspase inhibition by the giant ubiquitin ligase BIRC6. Science, 379, 2023
1Z5S	Crystal structure of a complex between UBC9, SUMO-1, RANGAP1 and NUP358/RANBP2 Descriptor: Ran GTPase-activating protein 1, Ran-binding protein 2, Ubiquitin-conjugating enzyme E2 I, ... Authors: Reverter, D, Lima, C.D. Deposit date: 2005-03-19 Release date: 2005-06-07 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (3.01 Å) Cite: Insights into E3 ligase activity revealed by a SUMO-RanGAP1-Ubc9-Nup358 complex. Nature, 435, 2005
6CP0	SdcA in complex with the E2, UbcH5C Descriptor: SdcA, Ubiquitin-conjugating enzyme E2 D3 Authors: Wasilko, D.J, Huang, Q, Mao, Y. Deposit date: 2018-03-13 Release date: 2018-08-01 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (3.01 Å) Cite: Insights into the ubiquitin transfer cascade catalyzed by theLegionellaeffector SidC. Elife, 7, 2018
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
8E2I	Cryo-EM structure of BIRC6/Smac Descriptor: Baculoviral IAP repeat-containing protein 6, Diablo IAP-binding mitochondrial protein Authors: Hunkeler, M, Fischer, E.S. Deposit date: 2022-08-15 Release date: 2023-02-15 Last modified: 2024-06-12 Method: ELECTRON MICROSCOPY (3.04 Å) Cite: Structures of BIRC6-client complexes provide a mechanism of SMAC-mediated release of caspases. Science, 379, 2023
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
7UVC	Rad6(P43L)-Bre1 Complex Descriptor: E3 ubiquitin-protein ligase BRE1, Ubiquitin-conjugating enzyme E2 2 Authors: Shukla, P.K, Chandrasekharan, M.B. Deposit date: 2022-04-29 Release date: 2023-01-11 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (3.05 Å) Cite: Structure and functional determinants of Rad6-Bre1 subunits in the histone H2B ubiquitin-conjugating complex. Nucleic Acids Res., 51, 2023
7W76	Crystal structure of the K. lactis Bre1 RBD in complex with Rad6, crystal form II Descriptor: E3 ubiquitin-protein ligase BRE1, GLYCEROL, SULFATE ION, ... Authors: Shi, M, Zhao, J, Xiang, S. Deposit date: 2021-12-03 Release date: 2023-03-29 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (3.05 Å) Cite: Structural basis for the Rad6 activation by the Bre1 N-terminal domain. Elife, 12, 2023
9B5P	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 1 map and model (ATP/Mg) Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Method: ELECTRON MICROSCOPY (3.08 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway To be published
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
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
4P5O	Structure of an RBX1-UBC12~NEDD8-CUL1-DCN1 complex: a RING-E3-E2~ubiquitin-like protein-substrate intermediate trapped in action Descriptor: Cullin-1, DCN1-like protein 1, E3 ubiquitin-protein ligase RBX1, ... Authors: Scott, D.C, Schulman, B.A. Deposit date: 2014-03-18 Release date: 2014-07-02 Last modified: 2023-12-27 Method: X-RAY DIFFRACTION (3.1071 Å) Cite: Structure of a RING E3 Trapped in Action Reveals Ligation Mechanism for the Ubiquitin-like Protein NEDD8. Cell, 157, 2014
4DHZ	The structure of h/ceOTUB1-ubiquitin aldehyde-UBC13~Ub Descriptor: Ubiquitin, Ubiquitin aldehyde, Ubiquitin thioesterase otubain-like, ... Authors: Wiener, R, Zhang, X, Wang, T, Wolberger, C. Deposit date: 2012-01-30 Release date: 2012-02-22 Last modified: 2017-11-15 Method: X-RAY DIFFRACTION (3.11 Å) Cite: The mechanism of OTUB1-mediated inhibition of ubiquitination. Nature, 483, 2012
9B5N	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - Ub(T) class 1 map and model from consensus Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Method: ELECTRON MICROSCOPY (3.12 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway To be published
8IEJ	RNF20-RNF40/hRad6A-Ub/nucleosome complex Descriptor: DNA (147-MER), E3 ubiquitin-protein ligase BRE1A, E3 ubiquitin-protein ligase BRE1B, ... Authors: Ai, H, Deng, Z, Sun, M, Du, Y, Pan, M, Liu, L. Deposit date: 2023-02-15 Release date: 2023-09-06 Last modified: 2023-09-20 Method: ELECTRON MICROSCOPY (3.12 Å) Cite: Mechanistic insights into nucleosomal H2B monoubiquitylation mediated by yeast Bre1-Rad6 and its human homolog RNF20/RNF40-hRAD6A. Mol.Cell, 83, 2023
3VON	Crystalstructure of the ubiquitin protease Descriptor: Ubiquitin thioesterase OTUB1, Ubiquitin-conjugating enzyme E2 N, Ubiquitin-conjugating enzyme E2 variant 2 Authors: Sato, Y, Fukai, S. Deposit date: 2012-01-30 Release date: 2012-05-30 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (3.15 Å) Cite: Molecular basis of Lys-63-linked polyubiquitination inhibition by the interaction between human deubiquitinating enzyme OTUB1 and ubiquitin-conjugating enzyme UBC13. J.Biol.Chem., 287, 2012
9B5T	Ubiquitin E1-Ub-E2 tetrahedral transthiolation intermediate mimic (singly Ub-loaded) - cluster 5 map and model (ATP/Mg) Descriptor: 4-aminobutanenitrile, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ... Authors: Kochanczyk, T, Lima, C.D. Deposit date: 2024-03-22 Release date: 2024-06-05 Method: ELECTRON MICROSCOPY (3.16 Å) Cite: Structural basis for transthiolation intermediates in the ubiquitin pathway To be published

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