2Y9P
 
 | | Pex4p-Pex22p mutant II structure | | Descriptor: | PEROXISOME ASSEMBLY PROTEIN 22, UBIQUITIN-CONJUGATING ENZYME E2-21 KDA | | Authors: | Williams, C, van den Berg, M, Panjikar, S, Distel, B, Wilmanns, M. | | Deposit date: | 2011-02-16 | | Release date: | 2012-02-29 | | Last modified: | 2023-12-20 | | Method: | X-RAY DIFFRACTION (3.25 Å) | | Cite: | Pex4P-Pex22P Structure
To be Published
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7YW1
 | | crystal structure of UBE2O | | Descriptor: | (E3-independent) E2 ubiquitin-conjugating enzyme UBE2O | | Authors: | Fu, Z, Zhu, W, Huang, H. | | Deposit date: | 2022-08-20 | | Release date: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (3.27 Å) | | Cite: | crystal structure of UBE2O
To Be Published
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3SY2
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7LYB
 | | Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c | | Descriptor: | BRCA1-associated RING domain protein 1, DNA (146-MER), DNA (147-MER), ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, D, Mer, E, Mer, G. | | Deposit date: | 2021-03-06 | | Release date: | 2021-07-28 | | Last modified: | 2021-09-01 | | Method: | ELECTRON MICROSCOPY (3.28 Å) | | Cite: | Mechanisms of BRCA1-BARD1 nucleosome recognition and ubiquitylation.
Nature, 596, 2021
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4R8P
 | | Crystal structure of the Ring1B/Bmi1/UbcH5c PRC1 ubiquitylation module bound to the nucleosome core particle | | Descriptor: | DNA (147-mer), E3 ubiquitin-protein ligase RING2, Ubiquitin-conjugating enzyme E2 D3, ... | | Authors: | McGinty, R.K, Henrici, R.C, Tan, S. | | Deposit date: | 2014-09-02 | | Release date: | 2014-11-05 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (3.2846 Å) | | Cite: | Crystal structure of the PRC1 ubiquitylation module bound to the nucleosome.
Nature, 514, 2014
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4DDG
 | | 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: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (3.2987 Å) | | Cite: | OTUB1 Co-opts Lys48-Linked Ubiquitin Recognition to Suppress E2 Enzyme Function.
Mol.Cell, 45, 2012
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8SMW
 | | Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 1) | | 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 (3.3 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8SN1
 | | Cryo-EM structure of the human nucleosome core particle in complex with RNF168 and UbcH5c~Ub (UbcH5c chemically conjugated to histone H2A. No density for Ub.) (class 6) | | 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 (3.3 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8ATU
 | | Cryo-EM structure of human BIRC6 | | Descriptor: | Baculoviral IAP repeat-containing protein 6, ZINC ION | | Authors: | Ehrmann, J.F, Grabarczyk, D.B, Clausen, T. | | Deposit date: | 2022-08-24 | | Release date: | 2023-02-15 | | Last modified: | 2023-03-29 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Structural basis for regulation of apoptosis and autophagy by the BIRC6/SMAC complex.
Science, 379, 2023
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7UN6
 | | Complex of UBE2O with NAP1L1 | | Descriptor: | (E3-independent) E2 ubiquitin-conjugating enzyme, Nucleosome assembly protein 1-like 1 | | Authors: | Yip, M.C.J, Sedor, S.F, Shao, S. | | Deposit date: | 2022-04-09 | | Release date: | 2022-08-03 | | Last modified: | 2024-02-14 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Mechanism of client selection by the protein quality-control factor UBE2O.
Nat.Struct.Mol.Biol., 29, 2022
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8ATM
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3SQV
 | | Crystal Structure of E. coli O157:H7 E3 ubiquitin ligase, NleL, with a human E2, UbcH7 | | Descriptor: | GLYCEROL, SULFATE ION, Ubiquitin-conjugating enzyme E2 L3, ... | | Authors: | Lin, D.Y, Chen, J. | | Deposit date: | 2011-07-06 | | Release date: | 2012-01-25 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Crystal structures of two bacterial HECT-like E3 ligases in complex with a human E2 reveal atomic details of pathogen-host interactions.
Proc.Natl.Acad.Sci.USA, 109, 2012
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3JVZ
 | | E2~Ubiquitin-HECT | | Descriptor: | E3 ubiquitin-protein ligase NEDD4-like, Ubiquitin, Ubiquitin-conjugating enzyme E2 D2 | | Authors: | Souphron, J, Kamadurai, H.B, Schulman, B.A. | | Deposit date: | 2009-09-17 | | Release date: | 2010-01-12 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (3.3 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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7P47
 | | Structure of the E3 ligase Smc5/Nse2 in complex with Ubc9-SUMO thioester mimetic | | Descriptor: | E3 SUMO-protein ligase MMS21, SUMO-conjugating enzyme UBC9, Structural maintenance of chromosomes protein 5, ... | | Authors: | Lascorz, J, Varejao, N, Reverter, D. | | Deposit date: | 2021-07-09 | | Release date: | 2021-11-24 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (3.314 Å) | | Cite: | Structural basis for the E3 ligase activity enhancement of yeast Nse2 by SUMO-interacting motifs.
Nat Commun, 12, 2021
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7MEX
 | | Structure of yeast Ubr1 in complex with Ubc2 and N-degron | | Descriptor: | E3 ubiquitin-protein ligase UBR1, N-degron, Ubiquitin, ... | | Authors: | Pan, M, Zheng, Q, Wang, T, Liang, L, Yu, Y, Liu, L, Zhao, M. | | Deposit date: | 2021-04-08 | | Release date: | 2021-11-24 | | Last modified: | 2024-05-29 | | Method: | ELECTRON MICROSCOPY (3.35 Å) | | Cite: | Structural insights into Ubr1-mediated N-degron polyubiquitination.
Nature, 600, 2021
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8SV8
 | | Cryo-EM structure of a double loaded human UBA7-UBE2L6-ISG15 thioester mimetic complex from a composite map | | Descriptor: | ADENOSINE MONOPHOSPHATE, Ubiquitin-like modifier-activating enzyme 7, Ubiquitin-like protein ISG15, ... | | Authors: | Afsar, M, Jia, L, Ruben, E.A, Olsen, S.K. | | Deposit date: | 2023-05-15 | | Release date: | 2023-10-11 | | Method: | ELECTRON MICROSCOPY (3.38 Å) | | Cite: | Cryo-EM structures of Uba7 reveal the molecular basis for ISG15 activation and E1-E2 thioester transfer.
Nat Commun, 14, 2023
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3EB6
 | | Structure of the cIAP2 RING domain bound to UbcH5b | | Descriptor: | Baculoviral IAP repeat-containing protein 3, Ubiquitin-conjugating enzyme E2 D2, ZINC ION | | Authors: | Mace, P.D, Linke, K, Schumacher, F.-R, Smith, C.A, Day, C.L. | | Deposit date: | 2008-08-27 | | Release date: | 2008-09-09 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (3.4 Å) | | Cite: | Structures of the cIAP2 RING Domain Reveal Conformational Changes Associated with Ubiquitin-conjugating Enzyme (E2) Recruitment.
J.Biol.Chem., 283, 2008
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8SEA
 | | Cryo-EM structure of a double loaded human UBA7-UBE2L6-ISG15 thioester mimetic complex (Form 1) | | Descriptor: | ADENOSINE MONOPHOSPHATE, Ubiquitin-like modifier-activating enzyme 7, Ubiquitin-like protein ISG15, ... | | Authors: | Afsar, M, Jia, L, Ruben, E.A, Olsen, S.K. | | Deposit date: | 2023-04-08 | | Release date: | 2023-10-11 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Cryo-EM structures of Uba7 reveal the molecular basis for ISG15 activation and E1-E2 thioester transfer.
Nat Commun, 14, 2023
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5AIT
 | | A complex of of RNF4-RING domain, UbeV2, Ubc13-Ub (isopeptide crosslink) | | Descriptor: | E3 UBIQUITIN-PROTEIN LIGASE RNF4, POLYUBIQUITIN-C, UBIQUITIN-CONJUGATING ENZYME E2 N, ... | | Authors: | Branigan, E, Naismith, J.H. | | Deposit date: | 2015-02-17 | | Release date: | 2015-07-08 | | Last modified: | 2024-05-08 | | Method: | X-RAY DIFFRACTION (3.4 Å) | | Cite: | Structural Basis for the Ring Catalyzed Synthesis of K63 Linked Ubiquitin Chains
Nat.Struct.Mol.Biol., 22, 2015
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8PJN
 | | Catalytic module of human CTLH E3 ligase bound to multiphosphorylated UBE2H~ubiquitin | | Descriptor: | E3 ubiquitin-protein transferase MAEA, E3 ubiquitin-protein transferase RMND5A, Ubiquitin, ... | | Authors: | Chrustowicz, J, Sherpa, D, Prabu, R.J, Schulman, B.A. | | Deposit date: | 2023-06-23 | | Release date: | 2024-01-03 | | Last modified: | 2024-01-31 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Multisite phosphorylation dictates selective E2-E3 pairing as revealed by Ubc8/UBE2H-GID/CTLH assemblies.
Mol.Cell, 84, 2024
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3OJ4
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5VNZ
 | | Structure of a TRAF6-Ubc13~Ub complex | | Descriptor: | TNF receptor-associated factor 6, Ubiquitin, Ubiquitin-conjugating enzyme E2 N, ... | | Authors: | Middleton, A.J, Day, C.L. | | Deposit date: | 2017-05-01 | | Release date: | 2017-12-06 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (3.41 Å) | | Cite: | The activity of TRAF RING homo- and heterodimers is regulated by zinc finger 1.
Nat Commun, 8, 2017
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7K5J
 | | Structure of an E1-E2-ubiquitin thioester mimetic | | Descriptor: | ADENOSINE MONOPHOSPHATE, Ubiquitin, Ubiquitin-activating enzyme E1 1, ... | | Authors: | Yuan, L, Lv, Z, Olsen, S.K. | | Deposit date: | 2020-09-16 | | Release date: | 2021-04-28 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (3.42 Å) | | Cite: | Crystal structures of an E1-E2-ubiquitin thioester mimetic reveal molecular mechanisms of transthioesterification.
Nat Commun, 12, 2021
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8R5H
 | | Ubiquitin ligation to neosubstrate by a cullin-RING E3 ligase & Cdc34: NEDD8-CUL2-RBX1-ELOB/C-VHL-MZ1 with trapped UBE2R2~donor UB-BRD4 BD2 | | 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, 5-azanylpentan-2-one, Bromodomain-containing protein 4, ... | | Authors: | Liwocha, J, Prabu, J.R, Kleiger, G, Schulman, B.A. | | Deposit date: | 2023-11-16 | | Release date: | 2024-02-21 | | Last modified: | 2024-04-17 | | Method: | ELECTRON MICROSCOPY (3.44 Å) | | Cite: | Cullin-RING ligases employ geometrically optimized catalytic partners for substrate targeting.
Mol.Cell, 84, 2024
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8IEG
 | | Bre1(mRBD-RING)/Rad6-Ub/nucleosome complex | | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase BRE1, Histone H2A type 1-B/E, ... | | Authors: | Ai, H, Deng, Z, Pan, M, Liu, L. | | Deposit date: | 2023-02-15 | | Release date: | 2023-09-06 | | Last modified: | 2023-09-20 | | Method: | ELECTRON MICROSCOPY (3.44 Å) | | Cite: | Mechanistic insights into nucleosomal H2B monoubiquitylation mediated by yeast Bre1-Rad6 and its human homolog RNF20/RNF40-hRAD6A.
Mol.Cell, 83, 2023
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