3WX2
| Mouse Cereblon thalidomide binding domain, native | Descriptor: | Protein cereblon, SULFATE ION, ZINC ION | Authors: | Mori, T, Ito, T, Hirano, Y, Yamaguchi, Y, Handa, H, Hakoshima, T. | Deposit date: | 2014-07-10 | Release date: | 2014-08-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structure of the human Cereblon-DDB1-lenalidomide complex reveals basis for responsiveness to thalidomide analogs Nat.Struct.Mol.Biol., 21, 2014
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3WX1
| Mouse Cereblon thalidomide binding domain, selenomethionine derivative | Descriptor: | Protein cereblon, SULFATE ION, ZINC ION | Authors: | Mori, T, Ito, T, Hirano, Y, Yamaguchi, Y, Handa, H, Hakoshima, T. | Deposit date: | 2014-07-10 | Release date: | 2014-08-06 | Last modified: | 2014-09-17 | Method: | X-RAY DIFFRACTION (1.93 Å) | Cite: | Structure of the human Cereblon-DDB1-lenalidomide complex reveals basis for responsiveness to thalidomide analogs Nat.Struct.Mol.Biol., 21, 2014
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3WAZ
| Crystal structure of a restriction enzyme PabI in complex with DNA | Descriptor: | ADENINE, DNA (5'-D(*GP*CP*AP*TP*AP*GP*CP*TP*GP*TP*(ORP)P*CP*AP*GP*CP*TP*AP*TP*GP*C)-3'), Putative uncharacterized protein | Authors: | Miyazono, K, Miyakawa, T, Ito, T, Tanokura, M. | Deposit date: | 2013-05-10 | Release date: | 2014-01-29 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | A sequence-specific DNA glycosylase mediates restriction-modification in Pyrococcus abyssi. Nat Commun, 5, 2014
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5XOD
| Crystal structure of human Smad2-Ski complex | Descriptor: | Mothers against decapentaplegic homolog 2, Ski oncogene | Authors: | Miyazono, K, Moriwaki, S, Ito, T, Tanokura, M. | Deposit date: | 2017-05-27 | Release date: | 2018-03-28 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.851 Å) | Cite: | Hydrophobic patches on SMAD2 and SMAD3 determine selective binding to cofactors Sci Signal, 11, 2018
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5XOC
| Crystal structure of human Smad3-FoxH1 complex | Descriptor: | Mothers against decapentaplegic homolog 3, Thioredoxin 1,Forkhead box protein H1 | Authors: | Miyazono, K, Ito, T, Tanokura, M. | Deposit date: | 2017-05-27 | Release date: | 2018-03-28 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Hydrophobic patches on SMAD2 and SMAD3 determine selective binding to cofactors Sci Signal, 11, 2018
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5ZB8
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5ZOJ
| Crystal structure of human SMAD2-MAN1 complex | Descriptor: | Inner nuclear membrane protein Man1, Mothers against decapentaplegic homolog 2 | Authors: | Miyazono, K, Ohno, Y, Ito, T, Tanokura, M. | Deposit date: | 2018-04-13 | Release date: | 2018-10-10 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.794 Å) | Cite: | Structural basis for receptor-regulated SMAD recognition by MAN1 Nucleic Acids Res., 46, 2018
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5ZOK
| Crystal structure of human SMAD1-MAN1 complex. | Descriptor: | Inner nuclear membrane protein Man1, Mothers against decapentaplegic homolog 1 | Authors: | Miyazono, K, Ito, T, Tanokura, M. | Deposit date: | 2018-04-13 | Release date: | 2018-10-17 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.85 Å) | Cite: | Structural basis for receptor-regulated SMAD recognition by MAN1 Nucleic Acids Res., 46, 2018
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6L2N
| Crystal structure of the R.PabI(Y68F-K154A)-dsDNA(GTAC-3bp-GTAC) complex | Descriptor: | DNA (5'-D(*TP*CP*AP*GP*CP*AP*GP*TP*AP*CP*TP*AP*AP*GP*TP*AP*CP*TP*GP*CP*TP*GP*A)-3'), RE_R_Pab1 domain-containing protein | Authors: | Miyazono, K, Wang, D, Ito, T, Tanokura, M. | Deposit date: | 2019-10-05 | Release date: | 2020-03-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.45 Å) | Cite: | Distortion of double-stranded DNA structure by the binding of the restriction DNA glycosylase R.PabI. Nucleic Acids Res., 48, 2020
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6L2O
| Crystal structure of the R.PabI(Y68F-K154A)-dsDNA(GTAC-5bp-GTAC) complex | Descriptor: | DNA (5'-D(*CP*A*GP*CP*AP*GP*TP*AP*CP*TP*TP*AP*AP*AP*GP*TP*AP*CP*TP*GP*CP*TP*G)-3'), RE_R_Pab1 domain-containing protein | Authors: | Miyazono, K, Wang, D, Ito, T, Tanokura, M. | Deposit date: | 2019-10-05 | Release date: | 2020-03-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Distortion of double-stranded DNA structure by the binding of the restriction DNA glycosylase R.PabI. Nucleic Acids Res., 48, 2020
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6M3L
| Crystal structure of the R.PabI(Y68F-K154A)-dsDNA(nonspecific) complex | Descriptor: | DNA (5'-D(*CP*GP*CP*AP*TP*CP*GP*AP*TP*TP*CP*AP*GP*AP*AP*TP*CP*GP*AP*TP*GP*CP*G)-3'), RE_R_Pab1 domain-containing protein | Authors: | Miyazono, K, Wang, D, Ito, T, Tanokura, M. | Deposit date: | 2020-03-04 | Release date: | 2020-03-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | Distortion of double-stranded DNA structure by the binding of the restriction DNA glycosylase R.PabI. Nucleic Acids Res., 48, 2020
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6M64
| Crystal structure of SMAD2 in complex with CBP | Descriptor: | CBP, Mothers against decapentaplegic homolog 2 | Authors: | Miyazono, K, Ito, T, Wada, H, Tanokura, M. | Deposit date: | 2020-03-13 | Release date: | 2020-11-25 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.45 Å) | Cite: | Structural basis for transcriptional coactivator recognition by SMAD2 in TGF-beta signaling. Sci.Signal., 13, 2020
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3ECS
| Crystal structure of human eIF2B alpha | Descriptor: | CHLORIDE ION, SULFATE ION, Translation initiation factor eIF-2B subunit alpha | Authors: | Hiyama, T.B, Ito, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2008-09-01 | Release date: | 2009-09-01 | Last modified: | 2014-02-05 | Method: | X-RAY DIFFRACTION (2.65 Å) | Cite: | Crystal structure of the alpha subunit of human translation initiation factor 2B J.Mol.Biol., 392, 2009
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7CFA
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7CO1
| Crystal structure of SMAD2 in complex with wild-type CBP | Descriptor: | CREB-binding protein, Mothers against decapentaplegic homolog 2 | Authors: | Miyazono, K, Wada, H, Ito, T, Tanokura, M. | Deposit date: | 2020-08-03 | Release date: | 2020-11-25 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Structural basis for transcriptional coactivator recognition by SMAD2 in TGF-beta signaling. Sci.Signal., 13, 2020
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7D45
| eIF2B-eIF2(aP), aP1 complex | Descriptor: | Eukaryotic translation initiation factor 2 subunit 1, Translation initiation factor eIF-2B subunit alpha, Translation initiation factor eIF-2B subunit beta, ... | Authors: | Kashiwagi, K, Ito, T. | Deposit date: | 2020-09-22 | Release date: | 2020-12-09 | Last modified: | 2021-01-27 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | ISRIB Blunts the Integrated Stress Response by Allosterically Antagonising the Inhibitory Effect of Phosphorylated eIF2 on eIF2B. Mol.Cell, 81, 2021
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7D44
| eIF2B-eIF2(aP), aP2 complex | Descriptor: | Eukaryotic translation initiation factor 2 subunit 1, Translation initiation factor eIF-2B subunit alpha, Translation initiation factor eIF-2B subunit beta, ... | Authors: | Kashiwagi, K, Ito, T. | Deposit date: | 2020-09-22 | Release date: | 2020-12-09 | Last modified: | 2021-01-27 | Method: | ELECTRON MICROSCOPY (4 Å) | Cite: | ISRIB Blunts the Integrated Stress Response by Allosterically Antagonising the Inhibitory Effect of Phosphorylated eIF2 on eIF2B. Mol.Cell, 81, 2021
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7D46
| eIF2B apo | Descriptor: | Translation initiation factor eIF-2B subunit alpha, Translation initiation factor eIF-2B subunit beta, Translation initiation factor eIF-2B subunit delta, ... | Authors: | Kashiwagi, K, Ito, T. | Deposit date: | 2020-09-22 | Release date: | 2020-12-09 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (4 Å) | Cite: | ISRIB Blunts the Integrated Stress Response by Allosterically Antagonising the Inhibitory Effect of Phosphorylated eIF2 on eIF2B. Mol.Cell, 81, 2021
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7D43
| eIF2B-eIF2(aP), aPg complex | Descriptor: | Eukaryotic translation initiation factor 2 subunit 1, Eukaryotic translation initiation factor 2 subunit 2, Eukaryotic translation initiation factor 2 subunit 3, ... | Authors: | Kashiwagi, K, Ito, T. | Deposit date: | 2020-09-22 | Release date: | 2020-12-09 | Last modified: | 2021-01-27 | Method: | ELECTRON MICROSCOPY (4.3 Å) | Cite: | ISRIB Blunts the Integrated Stress Response by Allosterically Antagonising the Inhibitory Effect of Phosphorylated eIF2 on eIF2B. Mol.Cell, 81, 2021
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3WJ9
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3AQA
| Crystal structure of the human BRD2 BD1 bromodomain in complex with a BRD2-interactive compound, BIC1 | Descriptor: | 1-[2-(1H-benzimidazol-2-ylsulfanyl)ethyl]-3-methyl-1,3-dihydro-2H-benzimidazole-2-thione, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Bromodomain-containing protein 2 | Authors: | Umehara, T, Nakamura, Y, Terada, T, Shirouzu, M, Padmanabhan, B, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2010-10-27 | Release date: | 2011-05-18 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Real-Time Imaging of Histone H4K12-Specific Acetylation Determines the Modes of Action of Histone Deacetylase and Bromodomain Inhibitors Chem.Biol., 18, 2011
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6LUT
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4TZU
| Crystal Structure of Murine Cereblon in Complex with Pomalidomide | Descriptor: | Protein cereblon, S-Pomalidomide, SULFATE ION, ... | Authors: | Chamberlain, P.P, Pagarigan, B, Delker, S, Leon, B. | Deposit date: | 2014-07-10 | Release date: | 2014-08-06 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural Basis for Responsiveness to Thalidomide-Analog Drugs Defined by the Crystal Structure of the Human Cereblon:DDB1:Lenalidomide Complex to be published
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4TZC
| Crystal Structure of Murine Cereblon in Complex with Thalidomide | Descriptor: | Protein cereblon, S-Thalidomide, SULFATE ION, ... | Authors: | Chamberlain, P.P, Pagarigan, B, Delker, S, Leon, B. | Deposit date: | 2014-07-10 | Release date: | 2014-08-06 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.88 Å) | Cite: | Structural Basis for Responsiveness to Thalidomide-Analog Drugs Defined by the Crystal Structure of the Human Cereblon:DDB1:Lenalidomide Complex to be published
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4TZ4
| Crystal Structure of Human Cereblon in Complex with DDB1 and Lenalidomide | Descriptor: | DNA damage-binding protein 1, Protein cereblon, S-Lenalidomide, ... | Authors: | Chamberlain, P.P, Pagarigan, B, Delker, S, Leon, B, Riley, M. | Deposit date: | 2014-07-09 | Release date: | 2014-08-06 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (3.01 Å) | Cite: | Structural Basis for Responsiveness to Thalidomide-Analog Drugs Defined by the Crystal Structure of the Human Cereblon:DDB1:Lenalidomide Complex To Be Published
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