PDB: 72678 resultsInfo pagesStatus searchChemie searchBIRD

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6PIG	V. cholerae TniQ-Cascade complex, closed conformation Descriptor: RNA (60-MER), TniQ monomer 1, TniQ monomer 2, ... Authors: Halpin-Healy, T, Klompe, S, Sternberg, S.H. Deposit date: 2019-06-26 Release date: 2019-10-02 Last modified: 2024-03-20 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Structural basis of DNA targeting by a transposon-encoded CRISPR-Cas system. Nature, 577, 2020
255D	CRYSTAL STRUCTURE OF AN RNA DOUBLE HELIX INCORPORATING A TRACK OF NON-WATSON-CRICK BASE PAIRS Descriptor: RNA (5'-R(*GP*GP*AP*CP*UP*UP*CP*GP*GP*UP*CP*C)-3') Authors: Holbrook, S.R, Cheong, C, Tinoco Jr, I, Kim, S.-H. Deposit date: 1993-12-21 Release date: 1995-02-07 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2 Å) Cite: Crystal structure of an RNA double helix incorporating a track of non-Watson-Crick base pairs. Nature, 353, 1991
7TDB	Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, manganese ions Descriptor: MAGNESIUM ION, MANGANESE (II) ION, [2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-5-yl]ethoxy-oxidanyl-phosphoryl]methylphosphonic acid, ... Authors: Nuthanakanti, A, Serganov, A. Deposit date: 2021-12-30 Release date: 2022-02-16 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.56 Å) Cite: Subsite Ligand Recognition and Cooperativity in the TPP Riboswitch: Implications for Fragment-Linking in RNA Ligand Discovery. Acs Chem.Biol., 17, 2022
7TD7	Crystal structure of an E. coli thiM riboswitch bound to thiamine, manganese ions Descriptor: 3-(4-AMINO-2-METHYL-PYRIMIDIN-5-YLMETHYL)-5-(2-HYDROXY-ETHYL)-4-METHYL-THIAZOL-3-IUM, MAGNESIUM ION, MANGANESE (II) ION, ... Authors: Nuthanakanti, A, Serganov, A. Deposit date: 2021-12-30 Release date: 2022-02-16 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.95 Å) Cite: Subsite Ligand Recognition and Cooperativity in the TPP Riboswitch: Implications for Fragment-Linking in RNA Ligand Discovery. Acs Chem.Biol., 17, 2022
7TDC	Crystal structure of the E. coli thiM riboswitch in complex with thiamine bisphosphonate, calcium ions Descriptor: CALCIUM ION, MAGNESIUM ION, [2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-5-yl]ethoxy-oxidanyl-phosphoryl]methylphosphonic acid, ... Authors: Nuthanakanti, A, Serganov, A. Deposit date: 2021-12-30 Release date: 2022-02-16 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.46 Å) Cite: Subsite Ligand Recognition and Cooperativity in the TPP Riboswitch: Implications for Fragment-Linking in RNA Ligand Discovery. Acs Chem.Biol., 17, 2022
7TDA	Crystal structure of the E. coli thiM riboswitch in complex with thiamine pyrophosphate, manganese ions Descriptor: MAGNESIUM ION, MANGANESE (II) ION, THIAMINE DIPHOSPHATE, ... Authors: Nuthanakanti, A, Serganov, A. Deposit date: 2021-12-30 Release date: 2022-02-16 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.25 Å) Cite: Subsite Ligand Recognition and Cooperativity in the TPP Riboswitch: Implications for Fragment-Linking in RNA Ligand Discovery. Acs Chem.Biol., 17, 2022
8HE5	RNA polymerase II elongation complex bound with Rad26 and Elf1, stalled at SHL(-3.5) of the nucleosome Descriptor: DNA (198-MER), DNA repair protein, DNA-directed RNA polymerase subunit, ... Authors: Osumi, K, Kujirai, T, Ehara, H, Kinoshita, C, Saotome, M, Kagawa, W, Sekine, S, Takizawa, Y, Kurumizaka, H. Deposit date: 2022-11-07 Release date: 2023-07-05 Last modified: 2024-07-03 Method: ELECTRON MICROSCOPY (6.95 Å) Cite: Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome. J.Mol.Biol., 435, 2023
8PFQ	RNA structure with 1-methylpseudoridine, P1 space group Descriptor: Chains: A,B, MAGNESIUM ION Authors: Spingler, B, McAuley, K, Nievergelt, P, Thorn, A. Deposit date: 2023-06-16 Release date: 2024-01-31 Last modified: 2024-05-01 Method: X-RAY DIFFRACTION (1.01 Å) Cite: RNA oligomers at atomic resolution containing 1-methylpseudouridine, an essential building block of mRNA vaccines. Chemmedchem, 19, 2024
2KYD	RDC and RCSA refinement of an A-form RNA: Improvements in Major Groove Width Descriptor: RNA (5'-R(*CP*UP*AP*GP*UP*UP*AP*GP*CP*UP*AP*AP*CP*UP*AP*G)-3') Authors: Tolbert, B.S, Summers, M.F, Miyazaki, Y, Barton, S, Kinde, B, Stark, P, Singh, R, Bax, A, Case, D. Deposit date: 2010-05-24 Release date: 2010-07-07 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Major groove width variations in RNA structures determined by NMR and impact of 13C residual chemical shift anisotropy and 1H-13C residual dipolar coupling on refinement. J.Biomol.Nmr, 47, 2010
8H1B	Crystal structure of MnmM from S. aureus complexed with SAM and tRNA anti-codon stem loop (ASL) (1.55 A) Descriptor: RNA (5'-R(*AP*CP*GP*GP*AP*CP*UP*UP*UP*GP*AP*CP*UP*CP*CP*GP*U)-3'), S-ADENOSYLMETHIONINE, SODIUM ION, ... Authors: Kim, J, Cho, G, Lee, J. Deposit date: 2022-10-01 Release date: 2023-01-25 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (1.55 Å) Cite: Identification of a novel 5-aminomethyl-2-thiouridine methyltransferase in tRNA modification. Nucleic Acids Res., 51, 2023
8HIO	Cryo-EM structure of the Cas12m2-crRNA binary complex Descriptor: Cas12m2, MAGNESIUM ION, RNA (56-MER), ... Authors: Omura, N.S, Nakagawa, R, Wu, Y.W, Sudfeld, C, Warren, V.R, Hirano, H, Kusakizako, T, Kise, Y, Lebbink, H.G.J, Itoh, Y, Oost, V.D.J, Nureki, O. Deposit date: 2022-11-21 Release date: 2023-04-12 Last modified: 2023-08-30 Method: ELECTRON MICROSCOPY (3.73 Å) Cite: Mechanistic and evolutionary insights into a type V-M CRISPR-Cas effector enzyme. Nat.Struct.Mol.Biol., 30, 2023
8HHM	Cryo-EM structure of the Cas12m2-crRNA-target DNA ternary complex intermediate state Descriptor: Cas12m2, DNA (36-MER), MAGNESIUM ION, ... Authors: Omura, N.S, Nakagawa, R, Wu, Y.W, Sudfeld, C, Warren, V.R, Hirano, H, Kusakizako, T, Kise, Y, Lebbink, H.G.J, Itoh, Y, Oost, V.D.J, Nureki, O. Deposit date: 2022-11-16 Release date: 2023-04-12 Last modified: 2024-05-22 Method: ELECTRON MICROSCOPY (3.08 Å) Cite: Mechanistic and evolutionary insights into a type V-M CRISPR-Cas effector enzyme. Nat.Struct.Mol.Biol., 30, 2023
8HHL	Cryo-EM structure of the Cas12m2-crRNA-target DNA full R-loop complex Descriptor: Cas12m2, MAGNESIUM ION, NTS (36-MER), ... Authors: Omura, N.S, Nakagawa, R, Wu, Y.W, Sudfeld, C, Warren, V.R, Hirano, H, Kusakizako, T, Kise, Y, Lebbink, H.G.J, Itoh, Y, Oost, V.D.J, Nureki, O. Deposit date: 2022-11-16 Release date: 2023-04-12 Last modified: 2023-08-30 Method: ELECTRON MICROSCOPY (2.87 Å) Cite: Mechanistic and evolutionary insights into a type V-M CRISPR-Cas effector enzyme. Nat.Struct.Mol.Biol., 30, 2023
5K0Y	m48S late-stage initiation complex, purified from rabbit reticulocytes lysates, displaying eIF2 ternary complex and eIF3 i and g subunits relocated to the intersubunit face Descriptor: 18S ribosomal RNA, 40S ribosomal protein S12, 40S ribosomal protein S21, ... Authors: Simonetti, A, Brito Querido, J, Myasnikov, A.G, Mancera-Martinez, E, Renaud, A, Kuhn, L, Hashem, Y. Deposit date: 2016-05-17 Release date: 2016-07-13 Last modified: 2018-04-18 Method: ELECTRON MICROSCOPY (5.8 Å) Cite: eIF3 Peripheral Subunits Rearrangement after mRNA Binding and Start-Codon Recognition. Mol.Cell, 63, 2016
8VTZ	Crystal structure of Aquifex aeolicus Trbp111 Descriptor: Methionyl-tRNA synthetase beta subunit, SULFATE ION Authors: Umuhire Juru, A, Zhang, J. Deposit date: 2024-01-27 Release date: 2024-08-07 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structural basis of tRNA recognition by the widespread OB fold. Nat Commun, 15, 2024
1A9N	CRYSTAL STRUCTURE OF THE SPLICEOSOMAL U2B''-U2A' PROTEIN COMPLEX BOUND TO A FRAGMENT OF U2 SMALL NUCLEAR RNA Descriptor: RNA (5'-R(*CP*CP*UP*GP*GP*UP*AP*UP*UP*GP*CP*AP*GP*UP*AP*CP*CP*UP*CP*CP*AP*GP* GP*U)-3'), SPLICEOSOMAL U2B'', U2A' Authors: Price, S.R, Evans, P.R, Nagai, K. Deposit date: 1998-04-08 Release date: 1998-09-23 Last modified: 2021-11-03 Method: X-RAY DIFFRACTION (2.38 Å) Cite: Crystal structure of the spliceosomal U2B"-U2A' protein complex bound to a fragment of U2 small nuclear RNA. Nature, 394, 1998
6INQ	RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA (+1 position) Descriptor: DNA (198-MER), DNA (31-MER), DNA-directed RNA polymerase subunit, ... Authors: Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. Deposit date: 2018-10-26 Release date: 2019-04-03 Last modified: 2024-03-27 Method: ELECTRON MICROSCOPY (6.9 Å) Cite: Structural basis of the nucleosome transition during RNA polymerase II passage. Science, 362, 2018
7WBW	RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-3.5) of the nucleosome Descriptor: DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... Authors: Osumi, K, Kujirai, T, Ehara, H, Sekine, S, Takizawa, Y, Kurumizaka, H. Deposit date: 2021-12-17 Release date: 2023-07-05 Last modified: 2024-06-26 Method: ELECTRON MICROSCOPY (7.1 Å) Cite: Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome. J.Mol.Biol., 435, 2023
7WBX	RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-3) of the nucleosome Descriptor: DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... Authors: Osumi, K, Kujirai, T, Ehara, H, Sekine, S, Takizawa, Y, Kurumizaka, H. Deposit date: 2021-12-17 Release date: 2023-07-05 Last modified: 2024-06-26 Method: ELECTRON MICROSCOPY (4 Å) Cite: Structural Basis of Damaged Nucleotide Recognition by Transcribing RNA Polymerase II in the Nucleosome. J.Mol.Biol., 435, 2023
17RA	BRANCHPOINT HELIX FROM YEAST AND BINDING SITE FOR PHAGE GA/MS2 COAT PROTEINS, NMR, 12 STRUCTURES Descriptor: RNA Authors: Nikonowicz, E.P, Smith, J.S. Deposit date: 1998-08-04 Release date: 1999-04-20 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: NMR structure and dynamics of an RNA motif common to the spliceosome branch-point helix and the RNA-binding site for phage GA coat protein. Biochemistry, 37, 1998
1ANR	CIS-ACTING RNA REGULATORY ELEMENT (HIV-1 TAR), NMR, 20 STRUCTURES Descriptor: RNA REGULATORY ELEMENT TAR Authors: Aboul-Ela, F, Varani, G, Karn, J. Deposit date: 1996-07-06 Release date: 1997-01-11 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structure of HIV-1 TAR RNA in the absence of ligands reveals a novel conformation of the trinucleotide bulge. Nucleic Acids Res., 24, 1996
6A5L	RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA Descriptor: DNA (198-MER), DNA (42-MER), DNA-directed RNA polymerase subunit, ... Authors: Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. Deposit date: 2018-06-24 Release date: 2018-10-03 Last modified: 2024-03-27 Method: ELECTRON MICROSCOPY (5.6 Å) Cite: Structural basis of the nucleosome transition during RNA polymerase II passage. Science, 362, 2018
6A5R	RNA polymerase II elongation complex stalled at SHL(-2) of the nucleosome Descriptor: DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... Authors: Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. Deposit date: 2018-06-25 Release date: 2018-10-03 Last modified: 2024-03-27 Method: ELECTRON MICROSCOPY (8.7 Å) Cite: Structural basis of the nucleosome transition during RNA polymerase II passage. Science, 362, 2018
6A5O	RNA polymerase II elongation complex stalled at SHL(-6) of the nucleosome Descriptor: DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... Authors: Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. Deposit date: 2018-06-25 Release date: 2018-10-03 Last modified: 2024-03-27 Method: ELECTRON MICROSCOPY (9.9 Å) Cite: Structural basis of the nucleosome transition during RNA polymerase II passage. Science, 362, 2018
6A5T	RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome Descriptor: DNA (198-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... Authors: Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. Deposit date: 2018-06-25 Release date: 2018-10-03 Last modified: 2024-03-27 Method: ELECTRON MICROSCOPY (6.7 Å) Cite: Structural basis of the nucleosome transition during RNA polymerase II passage. Science, 362, 2018

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