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- PDB-3izd: Model of the large subunit RNA expansion segment ES27L-out based ... -

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Database: PDB / ID: 3izd
TitleModel of the large subunit RNA expansion segment ES27L-out based on a 6.1 A cryo-EM map of Saccharomyces cerevisiae translating 80S ribosome. 3IZD is a small part (an expansion segment) which is in an alternative conformation to what is in already 3IZF.
Descriptor151-MER
KeywordsRIBOSOME / eukaryotic ribosome / homology modelling / de novo modeling / ribosomal RNA / rRNA / RNA expansion segments
Specimen sourceSaccharomyces cerevisiae / yeast / サッカロミセス・セレビシエ /
MethodElectron microscopy (8.6 A resolution)
AuthorsArmache, J.-P. / Jarasch, A. / Anger, A.M. / Villa, E. / Becker, T. / Bhushan, S. / Jossinet, F. / Habeck, M. / Dindar, G. / Franckenberg, S. / Marquez, V. / Mielke, T. / Thomm, M. / Berninghausen, O. / Beatrix, B. / Soeding, J. / Westhof, E. / Wilson, D.N. / Beckmann, R.
CitationProc. Natl. Acad. Sci. U.S.A., 2010, 107, 19748-19753

primary. Proc. Natl. Acad. Sci. U.S.A., 2010, 107, 19748-19753 StrPapers
Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution.
Jean-Paul Armache / Alexander Jarasch / Andreas M Anger / Elizabeth Villa / Thomas Becker / Shashi Bhushan / Fabrice Jossinet / Michael Habeck / Gülcin Dindar / Sibylle Franckenberg / Viter Marquez / Thorsten Mielke / Michael Thomm / Otto Berninghausen / Birgitta Beatrix / Johannes Söding / Eric Westhof / Daniel N Wilson / Roland Beckmann

#1. Proc.Natl.Acad.Sci.USA, 2010, 107, 19754-19759 StrPapers
Localization of eukaryote-specific ribosomal proteins in a 5.5-A cryo-EM map of the 80S eukaryotic ribosome.
Armache, J.P. / Jarasch, A. / Anger, A.M. / Villa, E. / Becker, T. / Bhushan, S. / Jossinet, F. / Habeck, M. / Dindar, G. / Franckenberg, S. / Marquez, V. / Mielke, T. / Thomm, M. / Berninghausen, O. / Beatrix, B. / Soding, J. / Westhof, E. / Wilson, D.N. / Beckmann, R.

DateDeposition: Oct 13, 2010 / Release: Dec 1, 2010 / Last modification: May 30, 2012

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Assembly

Deposited unit
A: rRNA expansion segment ES27L in an "out" conformation


Theoretical massNumber of molelcules
Total (without water)48,7221
Polyers48,7221
Non-polymers00
Water0
#1


TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

#1: RNA chainrRNA expansion segment ES27L in an "out" conformation


Mass: 48721.895 Da / Num. of mol.: 1
Source: (natural) Saccharomyces cerevisiae / yeast / サッカロミセス・セレビシエ /
References: GenBank: U53879.1

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY

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Sample preparation

Sample preparationpH: 7.5

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Electron microscopy imaging

RadiationDiffraction protocol: SINGLE WAVELENGTH / Monochromatic or laue m l: M / Scattering type: x-ray
Radiation wavelengthRelative weight: 1

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Processing

3D reconstructionResolution: 8.6 A
Number of atoms included #LASTProtein: 0 / Nucleic acid: 3044 / Ligand: 0 / Solvent: 0 / Total: 3044

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