PDB: 159 resultsInfo pagesStatus searchChemie searchBIRD

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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
4RCJ	Crystal structure of YTHDF1 YTH domain in complex with 5mer m6A RNA Descriptor: RNA (5'-R(*GP*GP*(6MZ)P*CP*U)-3'), UNKNOWN ATOM OR ION, YTH domain-containing family protein 1 Authors: Tempel, W, Xu, C, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2014-09-16 Release date: 2014-11-12 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.6 Å) Cite: Structural Basis for the Discriminative Recognition of N6-Methyladenosine RNA by the Human YT521-B Homology Domain Family of Proteins. J.Biol.Chem., 290, 2015
4RDO	Structure of YTH-YTHDF2 in the free state Descriptor: SULFATE ION, YTH domain-containing family protein 2 Authors: Li, F.D, Zhao, D.B, Wu, J.H, Shi, Y.Y. Deposit date: 2014-09-19 Release date: 2014-12-24 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Structure of the YTH domain of human YTHDF2 in complex with an m(6)A mononucleotide reveals an aromatic cage for m(6)A recognition. Cell Res., 24, 2014
4R3H	The crystal structure of an apo RNA binding protein Descriptor: SULFATE ION, UNKNOWN ATOM OR ION, YTH domain-containing protein 1 Authors: Xu, C, Liu, K, Tempel, W, Li, Y, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2014-08-15 Release date: 2014-09-17 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Structural basis for selective binding of m(6)A RNA by the YTHDC1 YTH domain. Nat.Chem.Biol., 10, 2014
4RDN	Structure of YTH-YTHDF2 in complex with m6A Descriptor: N-methyladenosine, SULFATE ION, YTH domain-containing family protein 2 Authors: Li, F.D, Zhao, D.B, Wu, J.H, Shi, Y.Y. Deposit date: 2014-09-19 Release date: 2014-12-24 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Structure of the YTH domain of human YTHDF2 in complex with an m(6)A mononucleotide reveals an aromatic cage for m(6)A recognition. Cell Res., 24, 2014
4RCM	Crystal structure of the Pho92 YTH domain in complex with m6A Descriptor: Methylated RNA-binding protein 1, RNA (5'-R(*UP*G)-D(*(6MZ)P*CP*U)-3'), UNKNOWN ATOM OR ION Authors: Tempel, W, Xu, C, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2014-09-16 Release date: 2014-11-19 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Structural Basis for the Discriminative Recognition of N6-Methyladenosine RNA by the Human YT521-B Homology Domain Family of Proteins. J.Biol.Chem., 290, 2015
4RCI	Crystal structure of YTHDF1 YTH domain Descriptor: UNKNOWN ATOM OR ION, YTH domain-containing family protein 1 Authors: Xu, C, Tempel, W, Liu, K, Walker, J.R, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2014-09-16 Release date: 2014-10-01 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.97 Å) Cite: Structural Basis for the Discriminative Recognition of N6-Methyladenosine RNA by the Human YT521-B Homology Domain Family of Proteins. J.Biol.Chem., 290, 2015
4R3I	The crystal structure of an RNA complex Descriptor: RNA (5'-R(*GP*GP*(6MZ)P*CP*U)-3'), UNKNOWN ATOM OR ION, YTH domain-containing protein 1 Authors: Tempel, W, Xu, C, Liu, K, Li, Y, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2014-08-15 Release date: 2014-09-17 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Structural basis for selective binding of m(6)A RNA by the YTHDC1 YTH domain. Nat.Chem.Biol., 10, 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
6YNI	Crystal structure of YTHDC1 with compound DHU_DC1_036 Descriptor: (2~{R},3~{R})-2-(3-chlorophenyl)-3,5,5-trimethyl-morpholine, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-13 Release date: 2020-07-15 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.36 Å) Cite: Structure-based design of ligands of the m6A-RNA reader YTHDC1 Eur J Med Chem Rep, 5, 2022
6YNL	Crystal structure of YTHDC1 with compound DHU_DC1_078 Descriptor: 3-[(2~{R})-5,5-dimethyl-2-phenyl-morpholin-4-yl]-~{N}-(methylcarbamoyl)propanamide, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-14 Release date: 2020-07-15 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Structure-based design of ligands of the m6A-RNA reader YTHDC1 Eur J Med Chem Rep, 5, 2022
6YNP	Crystal structure of YTHDC1 with compound T96C1 Descriptor: CHLORIDE ION, SULFATE ION, YTHDC1, ... Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-14 Release date: 2020-07-15 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.1 Å) Cite: Structure-based design of ligands of the m6A-RNA reader YTHDC1 Eur J Med Chem Rep, 5, 2022
6YL8	Crystal structure of YTHDC1 with compound DHU_DC1_011 Descriptor: (2~{R},5~{S})-2-(2-chlorophenyl)-5-methyl-morpholine, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-06 Release date: 2020-07-15 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Structure-based design of ligands of the m6A-RNA reader YTHDC1 Eur J Med Chem Rep, 5, 2022
6YNO	Crystal structure of YTHDC1 with compound DHU_DC1_139 Descriptor: 6-[[methyl-[(1-phenylpyrazol-3-yl)methyl]amino]methyl]-1~{H}-pyrimidine-2,4-dione, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-14 Release date: 2020-07-15 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.4 Å) Cite: Atomistic and Thermodynamic Analysis of N6-Methyladenosine (m 6 A) Recognition by the Reader Domain of YTHDC1. J Chem Theory Comput, 17, 2021
6YM2	Crystal structure of YTHDC1 with compound ADO_AC_25 Descriptor: SULFATE ION, YTHDC1, ~{N},9-dimethylpurin-6-amine Authors: Bedi, R.K, Li, Y, Dolbois, A, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-07 Release date: 2021-04-14 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.7 Å) Cite: Crystal structure of YTHDC1 with compound ADO_AC_25 To Be Published
6YM8	Crystal structure of YTHDC1 with compound YLI_DC1_002 Descriptor: 2-chloranyl-~{N}-methyl-9~{H}-purin-6-amine, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Li, Y, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-07 Release date: 2021-04-14 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Crystal structure of YTHDC1 with compound YLI_DC1_002 To Be Published
6ZD9	Crystal structure of YTHDC1 apo purified using GST tag Descriptor: DI(HYDROXYETHYL)ETHER, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Caflisch, A. Deposit date: 2020-06-14 Release date: 2020-07-29 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.51 Å) Cite: Atomistic and Thermodynamic Analysis of N6-Methyladenosine (m 6 A) Recognition by the Reader Domain of YTHDC1. J Chem Theory Comput, 17, 2021
6ZCN	Crystal structure of YTHDC1 with m6A Descriptor: N6-METHYLADENOSINE-5'-MONOPHOSPHATE, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-06-11 Release date: 2020-07-29 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.6 Å) Cite: Atomistic and Thermodynamic Analysis of N6-Methyladenosine (m 6 A) Recognition by the Reader Domain of YTHDC1. J Chem Theory Comput, 17, 2021
6ZCM	Crystal structure of YTHDC1 with compound DHU_DC1_180 Descriptor: 6-[[cyclopropyl-[(7-methoxy-1,3-benzodioxol-5-yl)methyl]amino]methyl]-1~{H}-pyrimidine-2,4-dione, SULFATE ION, YTHDC1 Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-06-11 Release date: 2020-07-29 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.24 Å) Cite: Atomistic and Thermodynamic Analysis of N6-Methyladenosine (m 6 A) Recognition by the Reader Domain of YTHDC1. J Chem Theory Comput, 17, 2021
6ZOT	Crystal structure of YTHDF3 YTH domain in complex with m6A RNA Descriptor: RNA, YTH domain-containing family protein 3 Authors: Bedi, R.K, Caflisch, A. Deposit date: 2020-07-07 Release date: 2020-10-28 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Structural and Dynamic Insights into Redundant Function of YTHDF Proteins. J.Chem.Inf.Model., 60, 2020
7A1V	Crystal structure of YTHDF2 in complex with m1A Descriptor: 6-AMINO-1-METHYLPURINE, GLYCEROL, SULFATE ION, ... Authors: Wang, X, Caflisch, A. Deposit date: 2020-08-14 Release date: 2021-08-25 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Crystal structure of YTHDF2 in complex with m1A To Be Published
6WE8	YTH domain of human YTHDC1 Descriptor: 1,2-ETHANEDIOL, GLYCEROL, SULFATE ION, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2020-04-01 Release date: 2020-07-15 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.18 Å) Cite: Biochemical and structural basis for YTH domain of human YTHDC1 binding to methylated adenine in DNA. Nucleic Acids Res., 48, 2020
6WE9	YTH domain of human YTHDC1 with 11mer ssDNA Containing N6mA Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*CP*GP*GP*(6MA)P*CP*TP*CP*TP*G)-3'), GLYCEROL, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2020-04-01 Release date: 2020-07-15 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.59 Å) Cite: Biochemical and structural basis for YTH domain of human YTHDC1 binding to methylated adenine in DNA. Nucleic Acids Res., 48, 2020
6WEA	YTH domain of human YTHDC1 with a 10mer Oligo Containing N6mA Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*CP*GP*GP*(6MA)P*CP*TP*TP*C)-3'), SODIUM ION, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2020-04-01 Release date: 2020-07-15 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Biochemical and structural basis for YTH domain of human YTHDC1 binding to methylated adenine in DNA. Nucleic Acids Res., 48, 2020
6YKI	Crystal structure of YTHDC1 with compound DHU_DC1_092 Descriptor: SULFATE ION, YTHDC1, ~{N}-ethyl-2-[(2~{S},5~{R})-5-methyl-2-phenyl-morpholin-4-yl]ethanamine Authors: Bedi, R.K, Huang, D, Wiedmer, L, Caflisch, A. Deposit date: 2020-04-06 Release date: 2020-07-15 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.3 Å) Cite: Structure-based design of ligands of the m6A-RNA reader YTHDC1 Eur J Med Chem Rep, 5, 2022

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