PDB: 159 resultsInfo pagesStatus searchChemie searchBIRD

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7BIK	Crystal structure of YTHDF2 in complex with m6Am Descriptor: (2~{R},3~{S},4~{R},5~{R})-2-(hydroxymethyl)-4-methoxy-5-[6-(methylamino)purin-9-yl]oxolan-3-ol, GLYCEROL, SULFATE ION, ... Authors: Wang, X, Caflisch, A. Deposit date: 2021-01-12 Release date: 2021-11-24 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Crystal structure of YTHDF2 in complex with m6Am To Be Published
4WQN	Crystal structure of N6-methyladenosine RNA reader YTHDF2 Descriptor: 1,2-ETHANEDIOL, GLYCEROL, YTH domain-containing family protein 2 Authors: Zhu, T, Roundtree, I.A, Wang, P, Wang, X, Wang, L, Sun, C, Tian, Y, Li, J, He, C, Xu, Y. Deposit date: 2014-10-22 Release date: 2014-11-19 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.121 Å) Cite: Crystal structure of the YTH domain of YTHDF2 reveals mechanism for recognition of N6-methyladenosine. Cell Res., 24, 2014
4U8T	Crystal structure of YTH domain of Zygosaccharomyces rouxii MRB1 protein in complex with N6-Methyladenosine RNA Descriptor: RNA (5'-R(*AP*GP*GP*(6MZ)P*CP*AP*U)-3'), ZYRO0G01672p Authors: Luo, S, Tong, L. Deposit date: 2014-08-04 Release date: 2014-09-10 Last modified: 2023-12-27 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Molecular basis for the recognition of methylated adenines in RNA by the eukaryotic YTH domain. Proc.Natl.Acad.Sci.USA, 111, 2014
5O8M	Crystal structure of the MmI1 YTH domain Descriptor: GLYCEROL, YTH domain-containing protein mmi1 Authors: Brettschneider, J, Verdel, A, Kadlec, J. Deposit date: 2017-06-13 Release date: 2018-04-25 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.45 Å) Cite: Selective termination of lncRNA transcription promotes heterochromatin silencing and cell differentiation. EMBO J., 36, 2017
6RT5	The YTH domain of YTHDC1 protein in complex with Gm6AC oligonucleotide Descriptor: RNA (5'-R(*(6MZ)P*C)-3'), SULFATE ION, YTH domain-containing protein 1 Authors: Bedi, R, Sledz, P, Caflisch, A. Deposit date: 2019-05-22 Release date: 2019-11-27 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (2.303 Å) Cite: Flexible Binding of m6A Reader Protein YTHDC1 to Its Preferred RNA Motif. J Chem Theory Comput, 15, 2019
5ZUU	Crystal structure of AtCPSF30 YTH domain in complex with 10mer m6A-modified RNA Descriptor: 30-kDa cleavage and polyadenylation specificity factor 30, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, GLYCEROL, ... Authors: Wu, B, Nie, H, Li, S, Patel, D.J. Deposit date: 2018-05-08 Release date: 2019-05-15 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (1.95 Å) Cite: CPSF30-L-mediated recognition of mRNA m6A modification controls alternative polyadenylation of nitrate signaling-related gene transcripts in Arabidopsis. Mol Plant, 2021
2MTV	Solution Structure of the YTH Domain of YT521-B in complex with N6-Methyladenosine containing RNA Descriptor: RNA_(5'-R(*UP*GP*(6MZ)P*CP*AP*C)-3'), YTH domain-containing protein 1 Authors: Theler, D, Dominguez, C, Blatter, M, Boudet, J, Allain, F.H.-T. Deposit date: 2014-09-01 Release date: 2014-11-26 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Solution structure of the YTH domain in complex with N6-methyladenosine RNA: a reader of methylated RNA. Nucleic Acids Res., 42, 2014
6K6U	Crystal structure of the human YTHDC2 YTH domain Descriptor: 3'-5' RNA helicase YTHDC2 Authors: Ma, C, Liao, S, Xu, C. Deposit date: 2019-06-04 Release date: 2019-12-25 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.27 Å) Cite: Crystal structure of human YTHDC2 YTH domain. Biochem.Biophys.Res.Commun., 518, 2019
7L4X	YTH Domain of Human YTHDC1 with dsDNA Comprising Single N6mA joined by two six-bp DNA duplexes in P3221 Crystal Descriptor: 1,2-ETHANEDIOL, YTH domain-containing protein 1, ssDNA w/N6A Authors: Horton, J.R, Cheng, X. Deposit date: 2020-12-21 Release date: 2021-11-03 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.79 Å) Cite: Human MettL3-MettL14 RNA adenine methyltransferase complex is active on double-stranded DNA containing lesions. Nucleic Acids Res., 49, 2021
7L4Y	YTH Domain of Human YTHDC1 with dsDNA Comprising Single N6mA joined by Two Six-bp DNA Duplexes in P212121 Crystal Descriptor: 1,2-ETHANEDIOL, YTH domain-containing protein 1, ssDNA 13mer Authors: Horton, J.R, Cheng, X. Deposit date: 2020-12-21 Release date: 2021-11-03 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.79 Å) Cite: Human MettL3-MettL14 RNA adenine methyltransferase complex is active on double-stranded DNA containing lesions. Nucleic Acids Res., 49, 2021
2YUD	Solution structure of the YTH domain in YTH domain-containing protein 1 (Putative splicing factor YT521) Descriptor: YTH domain-containing protein 1 Authors: He, F, Muto, Y, Inoue, M, Kigawa, T, Shirouzu, M, Tarada, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) Deposit date: 2007-04-06 Release date: 2007-10-09 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: Solution structure of the YTH domain in YTH domain-containing protein 1 (Putative splicing factor YT521) To be Published
6LR2	SOLUTION STRUCTURE OF THE YTH DOMAIN IN YTH DOMAIN-2 CONTAINING PROTEIN 2 Descriptor: YTH domain containing protein 2 (YTHDC2) Authors: Muto, Y, Kobayashi, N, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) Deposit date: 2020-01-15 Release date: 2021-01-20 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: SOLUTION STRUCTURE OF THE YTH DOMAIN IN YTH DOMAIN-CONTAINING PROTEIN 2 TO BE PUBLISHED
2YU6	Solution structure of the YTH domain in YTH domain-containing protein 2 Descriptor: YTH domain-containing protein 2 Authors: Endo, R, Muto, Y, Inoue, M, Kigawa, T, Shirouzu, M, Tarada, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) Deposit date: 2007-04-05 Release date: 2007-10-09 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: Solution structure of the YTH domain in YTH domain-containing protein 2 To be Published
6FPP	Structure of S. pombe Mmi1 Descriptor: GLYCEROL, MAGNESIUM ION, YTH domain-containing protein mmi1 Authors: Stowell, J.A.W, Hill, C.H, Yu, M, Wagstaff, J.L, McLaughlin, S.H, Freund, S.M.V, Passmore, L.A. Deposit date: 2018-02-11 Release date: 2018-05-09 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.93 Å) Cite: A low-complexity region in the YTH domain protein Mmi1 enhances RNA binding. J. Biol. Chem., 293, 2018
6FPQ	Structure of S. pombe Mmi1 in complex with 7-mer RNA Descriptor: (4R)-2-METHYLPENTANE-2,4-DIOL, RNA (5'-R(*UP*UP*AP*AP*AP*CP*C)-3'), YTH domain-containing protein mmi1 Authors: Stowell, J.A.W, Hill, C.H, Yu, M, Wagstaff, J.L, McLaughlin, S.H, Freund, S.M.V, Passmore, L.A. Deposit date: 2018-02-11 Release date: 2018-05-09 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.42 Å) Cite: A low-complexity region in the YTH domain protein Mmi1 enhances RNA binding. J. Biol. Chem., 293, 2018
6FPX	Structure of S. pombe Mmi1 in complex with 11-mer RNA Descriptor: GLYCEROL, RNA (5'-R(P*UP*UP*UP*AP*AP*AP*CP*CP*UP*A)-3'), YTH domain-containing protein mmi1 Authors: Stowell, J.A.W, Hill, C.H, Yu, M, Wagstaff, J.L, McLaughlin, S.H, Freund, S.M.V, Passmore, L.A. Deposit date: 2018-02-12 Release date: 2018-05-09 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.97 Å) Cite: A low-complexity region in the YTH domain protein Mmi1 enhances RNA binding. J. Biol. Chem., 293, 2018
7QKN	Crystal structure of YTHDF1 YTH domain in complex with the ebsulfur derivative compound 7 Descriptor: 1,2-ETHANEDIOL, THIOCYANATE ION, YTH domain-containing family protein 1, ... Authors: Dalle Vedove, A, Cazzanelli, G, Quattrone, A, Provenzani, A, Lolli, G. Deposit date: 2021-12-18 Release date: 2022-11-23 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Small-Molecule Ebselen Binds to YTHDF Proteins Interfering with the Recognition of N 6 -Methyladenosine-Modified RNAs. Acs Pharmacol Transl Sci, 5, 2022
7QL7	Crystal structure of YTHDF1 YTH domain in complex with the ebsulfur derivative compound 9 Descriptor: 1,2-ETHANEDIOL, THIOCYANATE ION, YTH domain-containing family protein 1, ... Authors: Dalle Vedove, A, Cazzanelli, G, Quattrone, A, Provenzani, A, Lolli, G. Deposit date: 2021-12-19 Release date: 2022-11-23 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Small-Molecule Ebselen Binds to YTHDF Proteins Interfering with the Recognition of N 6 -Methyladenosine-Modified RNAs. Acs Pharmacol Transl Sci, 5, 2022
7R5L	Crystal structure of YTHDF2 with compound YLI_DC1_015 Descriptor: 3,6-dimethyl-2~{H}-1,2,4-triazin-5-one, SULFATE ION, YTH domain-containing family protein 2 Authors: Nachawati, R, Nai, F, Li, Y, Caflisch, A. Deposit date: 2022-02-10 Release date: 2022-03-02 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (1.7 Å) Cite: Fragment Ligands of the m 6 A-RNA Reader YTHDF2. Acs Med.Chem.Lett., 13, 2022
7R5F	Crystal structure of YTHDF2 with compound YLI_DF_012 Descriptor: 5-azanyl-6-methyl-1~{H}-pyrimidine-2,4-dione, CHLORIDE ION, SULFATE ION, ... Authors: Nai, F, Li, Y, Caflisch, A. Deposit date: 2022-02-10 Release date: 2022-03-02 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2 Å) Cite: Fragment Ligands of the m 6 A-RNA Reader YTHDF2. Acs Med.Chem.Lett., 13, 2022
7R5W	Crystal structure of YTHDF2 with compound YLI_DF_029 Descriptor: 6-cyclopropyl-1H-pyrimidine-2,4-dione, CHLORIDE ION, GLYCEROL, ... Authors: Nai, F, Li, Y, Caflisch, A. Deposit date: 2022-02-11 Release date: 2022-03-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (1.75 Å) Cite: Fragment Ligands of the m 6 A-RNA Reader YTHDF2. Acs Med.Chem.Lett., 13, 2022
5DNO	Crystal structure of Mmi1 YTH domain complex with RNA Descriptor: RNA (5'-R(*CP*UP*UP*AP*AP*AP*C)-3'), YTH domain-containing protein mmi1 Authors: Wang, C.Y, Zhu, Y.W, Wu, J.H, Shi, Y.Y. Deposit date: 2015-09-10 Release date: 2016-04-06 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (1.8 Å) Cite: A novel RNA-binding mode of the YTH domain reveals the mechanism for recognition of determinant of selective removal by Mmi1 Nucleic Acids Res., 44, 2016
5DNP	Crystal structure of Mmi1 YTH domain Descriptor: PHOSPHATE ION, YTH domain-containing protein mmi1 Authors: Wang, C.Y, Zhu, Y.W, Shi, Y.Y, Wu, J.H. Deposit date: 2015-09-10 Release date: 2016-04-06 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.3 Å) Cite: A novel RNA-binding mode of the YTH domain reveals the mechanism for recognition of determinant of selective removal by Mmi1 Nucleic Acids Res., 44, 2016
5EIP	apo-structure of YTH domain of SpMmi1 Descriptor: YTH domain-containing protein mmi1 Authors: Wu, B.X, Xu, J.H, Su, S.C, Ma, J.B. Deposit date: 2015-10-30 Release date: 2016-01-27 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.49 Å) Cite: Structural insights into the specific recognition of DSR by the YTH domain containing protein Mmi1 Biochem. Biophys. Res. Commun., 491, 2017
5EIM	YTH domain-containing protein mmi1 and RNA complex Descriptor: RNA (5'-R(*AP*UP*UP*AP*AP*AP*CP*A)-3'), YTH domain-containing protein mmi1 Authors: Wu, B.X, Xu, J.H, Su, S.C, Ma, J.B. Deposit date: 2015-10-30 Release date: 2016-01-27 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (1.54 Å) Cite: Structural insights into the specific recognition of DSR by the YTH domain containing protein Mmi1 Biochem. Biophys. Res. Commun., 491, 2017

 

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