HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Compound GCP

Identifiers

  • Canonical SMILES: 
    NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P@@](O)(=O)C[P](O)(O)=O)[C@@H](O)[C@H]3O
  • IUPAC name: 
    5'-O-[(S)-hydroxy{[(R)-hydroxy(phosphonomethyl)phosphoryl]oxy}phosphoryl]guanosine
  • InChi: 
    InChI=1S/C11H18N5O13P3/c12-11-14-8-5(9(19)15-11)13-2-16(8)10-7(18)6(17)4(28-10)1-27-32(25,26)29-31(23,24)3-30(20,21)22/h2,4,6-7,10,17-18H,1,3H2,(H,23,24)(H,25,26)(H2,20,21,22)(H3,12,14,15,19)/t4-,6-,7-,10-/m1/s1
  • InChiKey: 
    PHBDHXOBFUBCJD-KQYNXXCUSA-N

Chemistry rules

Lipinski's RO5 Veber Pfizer's 3/75

External links

135398731 DB03725

RNA-SM complexes

PDB code Deposition date Reference publication
4v5l Sept. 2, 2010 Voorhees Rebecca M., Schmeing T. Martin, Kelley Ann C., Ramakrishnan V.. . The Mechanism for Activation of GTP Hydrolysis on the Ribosome Science
4v8o July 26, 2011 Jin Hong, Kelley Ann C., Ramakrishnan V.. . Crystal structure of the hybrid state of ribosome in complex with the guanosine triphosphatase release factor 3 Proceedings of the National Academy of Sciences
4v9h March 25, 2013 Tourigny David S., Fernández Israel S., Kelley Ann C., Ramakrishnan V.. . Elongation Factor G Bound to the Ribosome in an Intermediate State of Translocation Science
4v9p May 3, 2013 Pulk Arto, Cate Jamie H. D.. . Control of Ribosomal Subunit Rotation by Elongation Factor G Science
5it7 March 16, 2016 Murray Jason, Savva Christos G, Shin Byung-Sik, Dever Thomas E, Ramakrishnan V, Fernández Israel S. . Structural characterization of ribosome recruitment and translocation by type IV IRES eLife
5j8b April 7, 2016 Gagnon Matthieu G., Lin Jinzhong, Steitz Thomas A.. . Elongation factor 4 remodels the A-site tRNA on the ribosome Proceedings of the National Academy of Sciences
5lzw Oct. 2, 2016 Shao Sichen, Murray Jason, Brown Alan, Taunton Jack, Ramakrishnan V., Hegde Ramanujan S.. . Decoding Mammalian Ribosome-mRNA States by Translational GTPase Complexes Cell
6gq1 June 7, 2018 Pellegrino Simone, Demeshkina Natalia, Mancera-Martinez Eder, Melnikov Sergey, Simonetti Angelita, Myasnikov Alexander, Yusupov Marat, Yusupova Gulnara, Hashem Yaser. . Structural Insights into the Role of Diphthamide on Elongation Factor 2 in mRNA Reading-Frame Maintenance Journal of Molecular Biology
6gqv June 8, 2018 Pellegrino Simone, Demeshkina Natalia, Mancera-Martinez Eder, Melnikov Sergey, Simonetti Angelita, Myasnikov Alexander, Yusupov Marat, Yusupova Gulnara, Hashem Yaser. . Structural Insights into the Role of Diphthamide on Elongation Factor 2 in mRNA Reading-Frame Maintenance Journal of Molecular Biology
6gxo June 27, 2018 Graf Michael, Huter Paul, Maracci Cristina, Peterek Miroslav, Rodnina Marina V., Wilson Daniel N.. . Visualization of translation termination intermediates trapped by the Apidaecin 137 peptide during RF3-mediated recycling of RF1 Nature Communications
7a5k Aug. 21, 2020 Desai Nirupa, Yang Hanting, Chandrasekaran Viswanathan, Kazi Razina, Minczuk Michal, Ramakrishnan V.. . Elongational stalling activates mitoribosome-associated quality control Science
7k51 Sept. 16, 2020 Demo Gabriel, Gamper Howard B., Loveland Anna B., Masuda Isao, Carbone Christine E., Svidritskiy Egor, Hou Ya-Ming, Korostelev Andrei A.. . Structural basis for +1 ribosomal frameshifting during EF-G-catalyzed translocation Nature Communications
7k55 Sept. 16, 2020 Demo Gabriel, Gamper Howard B., Loveland Anna B., Masuda Isao, Carbone Christine E., Svidritskiy Egor, Hou Ya-Ming, Korostelev Andrei A.. . Structural basis for +1 ribosomal frameshifting during EF-G-catalyzed translocation Nature Communications
7pd3 Aug. 4, 2021 Chandrasekaran Viswanathan, Desai Nirupa, Burton Nicholas O, Yang Hanting, Price Jon, Miska Eric A, Ramakrishnan V. . Visualizing formation of the active site in the mitochondrial ribosome eLife
8fzi Jan. 28, 2023 Li Li, Rybak Mariia Yu., Lin Jinzhong, Gagnon Matthieu G.. . The ribosome termination complex remodels release factor RF3 and ejects GDP Nature Structural & Molecular Biology
8fzj Jan. 28, 2023 Li Li, Rybak Mariia Yu., Lin Jinzhong, Gagnon Matthieu G.. . The ribosome termination complex remodels release factor RF3 and ejects GDP Nature Structural & Molecular Biology
8y5q Jan. 31, 2024

Physicochemical filters

Descriptor Lipinski's RO5 Veber Pfizer's 3/75
Compliance
MW 521.21 g/mol
HBA not available
HBD not available
HBA + HBD
AlogP not available
TPSA not available
RB not available

Radar chart