PDB: 926 resultsInfo pagesStatus searchChemie searchBIRD

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7V08	Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a Spb1 D52A suppressor 3 strain Descriptor: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 25S rRNA, 5.8S rRNA, ... Authors: Sekulski, K, Cruz, V.E, Weirich, C.S, Erzberger, J.P. Deposit date: 2022-05-10 Release date: 2023-03-15 Last modified: 2024-06-12 Method: ELECTRON MICROSCOPY (2.36 Å) Cite: rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly. Nat Commun, 14, 2023
7YCX	The structure of INTAC-PEC complex Descriptor: DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB1,DNA-directed RNA polymerase II subunit RPB1, ... Authors: Zheng, H, Jin, Q, Wang, X, Qi, Y, Liu, W, Ren, Y, Zhao, D, Chen, F.X, Cheng, J, Chen, X, Xu, Y. Deposit date: 2022-07-02 Release date: 2023-03-15 Last modified: 2023-09-27 Method: ELECTRON MICROSCOPY (4.18 Å) Cite: Structural basis of INTAC-regulated transcription. Protein Cell, 14, 2023
8HK1	The cryo-EM structure of human pre-17S U2 snRNP Descriptor: ATP-dependent RNA helicase DDX42, HIV Tat-specific factor 1, PHD finger-like domain-containing protein 5A, ... Authors: Zhang, X, Zhan, X, Shi, Y. Deposit date: 2022-11-24 Release date: 2023-03-08 Last modified: 2023-08-16 Method: ELECTRON MICROSCOPY (2.7 Å) Cite: Mechanisms of the RNA helicases DDX42 and DDX46 in human U2 snRNP assembly. Nat Commun, 14, 2023
7Q33	Solution structure of RBM39 RRM2 bound to 5'-AGCUUUG-3 Descriptor: RNA (5'-R(*AP*GP*CP*UP*UP*UP*G)-3'), RNA-binding protein 39 Authors: Campagne, S, Allain, F.H. Deposit date: 2021-10-26 Release date: 2023-02-08 Last modified: 2023-09-20 Method: SOLUTION NMR Cite: Molecular basis of RNA-binding and autoregulation by the cancer-associated splicing factor RBM39. Nat Commun, 14, 2023
8GXB	Crystal structure of NAD+ -II riboswitch in complex with NAD+ Descriptor: MAGNESIUM ION, NAD+ II riboswitch, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ... Authors: Xu, X.C, Ren, A.M. Deposit date: 2022-09-19 Release date: 2023-01-18 Last modified: 2024-05-29 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Structure-based investigations of the NAD+-II riboswitch. Nucleic Acids Res., 51, 2023
8GXC	Crystal structure of NAD+ -II riboswitch in complex with NMN Descriptor: 61-mer RNA, BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE, MAGNESIUM ION, ... Authors: Xu, X.C, Ren, A.M. Deposit date: 2022-09-19 Release date: 2023-01-18 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Structure-based investigations of the NAD+-II riboswitch. Nucleic Acids Res., 51, 2023
7ZIR	Cryo-EM structure of hnRNPDL amyloid fibrils Descriptor: Heterogeneous nuclear ribonucleoprotein D-like Authors: Garcia-Pardo, J, Chaves-Sanjuan, A, Bartolome-Nafria, A, Gil-Garcia, M, Visentin, C, Bolognesi, M, Ricagno, S, Ventura, S. Deposit date: 2022-04-08 Release date: 2022-12-28 Last modified: 2023-12-13 Method: ELECTRON MICROSCOPY (2.5 Å) Cite: Cryo-EM structure of hnRNPDL-2 fibrils, a functional amyloid associated with limb-girdle muscular dystrophy D3. Nat Commun, 14, 2023
7WEZ	Crystal structure of RRM domain of Cyclophilin 33-like protein of Plasmodium falciparum Descriptor: MAGNESIUM ION, RNA-binding protein, putative Authors: Verma, G, Bhavesh, N.S. Deposit date: 2021-12-24 Release date: 2022-12-28 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Crystal structure of RRM domain of Cyclophilin 33-like protein of Plasmodium falciparum To Be Published
7QDE	NMR structure of Npl3 RRM12 bound to the AUCCAGUGGAA RNA Descriptor: Nucleolar protein 3, RNA (5'-R(*AP*UP*CP*CP*AP*GP*UP*GP*GP*AP*A)-3') Authors: Allain, F.H.-T, Clery, A, Moursy, A. Deposit date: 2021-11-26 Release date: 2022-12-21 Last modified: 2024-01-10 Method: SOLUTION NMR Cite: RNA recognition by Npl3p reveals U2 snRNA-binding compatible with a chaperone role during splicing. Nat Commun, 14, 2023
7U0H	State NE1 nucleolar 60S ribosome biogenesis intermediate - Overall model Descriptor: 25S rRNA, 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase, 5.8S rRNA, ... Authors: Cruz, V.E, Sekulski, K, Peddada, N, Erzberger, J.P. Deposit date: 2022-02-18 Release date: 2022-12-14 Last modified: 2024-06-12 Method: ELECTRON MICROSCOPY (2.76 Å) Cite: Sequence-specific remodeling of a topologically complex RNP substrate by Spb4. Nat.Struct.Mol.Biol., 29, 2022
7ZHR	Complex structure of drosophila Unr CSD789 and pAbp RRM3 Descriptor: Polyadenylate-binding protein, Upstream of N-ras, isoform A Authors: Hollmann, N.M, Jagtap, P.K.A, Hennig, J. Deposit date: 2022-04-07 Release date: 2022-12-07 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.99 Å) Cite: Upstream of N-Ras C-terminal cold shock domains mediate poly(A) specificity in a novel RNA recognition mode and bind poly(A) binding protein. Nucleic Acids Res., 51, 2023
8ESQ	Ytm1 associated nascent 60S ribosome State 2 Descriptor: 25S rRNA (cytosine-C(5))-methyltransferase nop2, 60S ribosomal protein L13, 60S ribosomal protein L14, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-14 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8EUY	Ytm1 associated nascent 60S ribosome (-fkbp39) State 1A Descriptor: 60S ribosomal protein L13, 60S ribosomal protein L14, 60S ribosomal protein L15-A, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-19 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (3 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8ETH	Ytm1 associated 60S nascent ribosome State 1B Descriptor: 60S ribosomal protein L13, 60S ribosomal protein L14, 60S ribosomal protein L15-A, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-17 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (3.8 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8ESR	Ytm1 associated nascent 60S ribosome (-fkbp39) State 2 Descriptor: 25S rRNA (cytosine-C(5))-methyltransferase nop2, 60S ribosomal protein L13, 60S ribosomal protein L14, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-14 Release date: 2022-11-30 Last modified: 2022-12-14 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8ETI	Fkbp39 associated 60S nascent ribosome State 1 Descriptor: 60S ribosomal protein L13, 60S ribosomal protein L14, 60S ribosomal protein L15-A, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-17 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (3.7 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8EUP	Ytm1 associated 60S nascent ribosome State 1A Descriptor: 60S ribosomal protein L13, 60S ribosomal protein L14, 60S ribosomal protein L15-A, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-19 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8ETG	Fkbp39 associated 60S nascent ribosome State 3 Descriptor: 60S ribosomal protein L13, 60S ribosomal protein L14, 60S ribosomal protein L15-A, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-17 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (3.4 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
8EV3	Ytm1 associated 60S nascent ribosome (-Fkbp39) State 1B Descriptor: 60S ribosomal protein L13, 60S ribosomal protein L14, 60S ribosomal protein L15-A, ... Authors: Zhou, X, Bilokapic, S, Deshmukh, A.A, Halic, M. Deposit date: 2022-10-19 Release date: 2022-11-30 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (3 Å) Cite: Chromatin localization of nucleophosmin organizes ribosome biogenesis. Mol.Cell, 82, 2022
7Q8A	Crystal structure of tandem domain RRM1-2 of FUBP-interacting repressor (FIR) bound to FUSE ssDNA fragment Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(P*GP*T)-3'), Poly(U)-binding-splicing factor PUF60, ... Authors: Ni, X, Joerger, A.C, Chaikuad, A, Knapp, S, Structural Genomics Consortium (SGC) Deposit date: 2021-11-10 Release date: 2022-11-09 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.05 Å) Cite: Crystal structure of tandem domain RRM1-2 of FIR bound to FUSE ssDNA fragment To Be Published
7R7A	State E1 nucleolar 60S ribosome biogenesis intermediate - Composite model Descriptor: 25S rRNA, 25S rRNA (cytosine(2870)-C(5))-methyltransferase, 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase, ... Authors: Cruz, V.E, Sekulski, K, Peddada, N, Erzberger, J.P. Deposit date: 2021-06-24 Release date: 2022-11-09 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (3.04 Å) Cite: Sequence-specific remodeling of a topologically complex RNP substrate by Spb4. Nat.Struct.Mol.Biol., 29, 2022
7R6Q	State E2 nucleolar 60S ribosome biogenesis intermediate - Foot region model Descriptor: 25S rRNA, 5.8S rRNA, 60S ribosomal protein L13-A, ... Authors: Cruz, V.E, Sekulski, K, Peddada, N, Erzberger, J.P. Deposit date: 2021-06-23 Release date: 2022-11-09 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (2.98 Å) Cite: Sequence-specific remodeling of a topologically complex RNP substrate by Spb4. Nat.Struct.Mol.Biol., 29, 2022
8B8S	Solution structure of tandem RRM1 and RRM2 domains of yeast NPL3 Descriptor: Serine/arginine (SR)-type shuttling mRNA binding protein NPL3 Authors: Kachariya, N, Sattler, M, Keil, P, Strasser, K. Deposit date: 2022-10-04 Release date: 2022-11-09 Last modified: 2024-06-19 Method: SOLUTION NMR, SOLUTION SCATTERING Cite: Npl3 functions in mRNP assembly by recruitment of mRNP components to the transcription site and their transfer onto the mRNA. Nucleic Acids Res., 51, 2023
7NAC	State E2 nucleolar 60S ribosomal biogenesis intermediate - Composite model Descriptor: 25S rRNA, 25S rRNA (cytosine(2870)-C(5))-methyltransferase, 27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferase, ... Authors: Cruz, V.E, Sekulski, K, Peddada, N, Erzberger, J.P. Deposit date: 2021-06-21 Release date: 2022-11-09 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (3.04 Å) Cite: Sequence-specific remodeling of a topologically complex RNP substrate by Spb4. Nat.Struct.Mol.Biol., 29, 2022
7Z3X	Crystal structure of FIR RRM1-2 Y115F mutant bound to FUSE ssDNA Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*TP*TP*T)-3'), DNA (5'-D(P*GP*TP*())-3'), ... Authors: Ni, X, Chaikuad, A, Knapp, S, Structural Genomics Consortium (SGC) Deposit date: 2022-03-02 Release date: 2022-11-09 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (1.65 Å) Cite: Crystal structure of FIR RRM1-2 Y115F mutant bound to FUSE ssDNA To Be Published

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