Access the full text.
Sign up today, get DeepDyve free for 14 days.
Duane Eichler, Nessly Craig (1994)
Processing of eukaryotic ribosomal RNA.Progress in nucleic acid research and molecular biology, 49
L. Pintard, D. Kressler, B. Lapeyre (2000)
Spb1p Is a Yeast Nucleolar Protein Associated with Nop1p and Nop58p That Is Able To BindS-Adenosyl-l-Methionine In VitroMolecular and Cellular Biology, 20
K. Newton, E. Petfalski, D. Tollervey, J. Cáceres (2003)
Fibrillarin Is Essential for Early Development and Required for Accumulation of an Intron-Encoded Small Nucleolar RNA in the MouseMolecular and Cellular Biology, 23
C. Colovos, T. Yeates (1993)
Verification of protein structures: Patterns of nonbonded atomic interactionsProtein Science, 2
Lu Deng, N. Starostina, Zhi-jie Liu, J. Rose, R. Terns, M. Terns, Bi-Cheng Wang (2004)
Structure determination of fibrillarin from the hyperthermophilic archaeon Pyrococcus furiosus.Biochemical and biophysical research communications, 315 3
Ram Seshadri (2004)
Crystal structures
M. Aittaleb, Thomas Visone, M. Fenley, Hong Li (2004)
Structural and Thermodynamic Evidence for a Stabilizing Role of Nop5p in S-Adenosyl-L-methionine Binding to Fibrillarin*Journal of Biological Chemistry, 279
A. Wallace, R. Laskowski, J. Thornton (1995)
LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions.Protein engineering, 8 2
J. Hardin, R. Batey (2006)
The bipartite architecture of the sRNA in an archaeal box C/D complex is a primary determinant of specificityNucleic Acids Research, 34
K. Ye, Ru Jia, Jinzhong Lin, Minghua Ju, Jin Peng, A. Xu, Liman Zhang (2009)
Structural organization of box C/D RNA-guided RNA methyltransferaseProceedings of the National Academy of Sciences, 106
Hongming Wang, D. Boisvert, Kyeong Kim, R. Kim, Sung-Hou Kim (2000)
Crystal structure of a fibrillarin homologue from Methanococcus jannaschii, a hyperthermophile, at 1.6 Å resolutionThe EMBO Journal, 19
J. Pflugrath (1999)
The finer things in X-ray diffraction data collection.Acta crystallographica. Section D, Biological crystallography, 55 Pt 10
(2004)
Coot: model-building tools for molecular graphics.
Arina Omer, Sonia Ziesche, H. Ebhardt, P. Dennis (2002)
In vitro reconstitution and activity of a C/D box methylation guide ribonucleoprotein complexProceedings of the National Academy of Sciences of the United States of America, 99
E. Caffarelli, Massimo Losito, C. Giorgi, A. Fatica, I. Bozzoni (1998)
In Vivo Identification of Nuclear Factors Interacting with the Conserved Elements of Box C/D Small Nucleolar RNAsMolecular and Cellular Biology, 18
Z. Otwinowski, W. Minor (1997)
[20] Processing of X-ray diffraction data collected in oscillation mode.Methods in enzymology, 276
S. Galardi, A. Fatica, A. Bachi, A. Scaloni, C. Presutti, I. Bozzoni (2002)
Purified Box C/D snoRNPs Are Able To Reproduce Site-Specific 2′-O-Methylation of Target RNA In VitroMolecular and Cellular Biology, 22
Jinzhong Lin, Shaomei Lai, Ru Jia, A. Xu, Liman Zhang, Jing Lu, K. Ye (2011)
Structural basis for site-specific ribose methylation by box C/D RNA protein complexesNature, 469
T. Schwede, J. Kopp, N. Guex, M. Peitsch (2003)
SWISS-MODEL: an automated protein homology-modeling serverNucleic acids research, 31 13
R. Laskowski, M. MacArthur, D. Moss, J. Thornton (1993)
PROCHECK: a program to check the stereochemical quality of protein structuresJournal of Applied Crystallography, 26
S. Horowitz, J. Yesselman, H. Al‐Hashimi, R. Trievel (2011)
Direct Evidence for Methyl Group Coordination by Carbon-Oxygen Hydrogen Bonds in the Lysine Methyltransferase SET7/9*The Journal of Biological Chemistry, 286
M. Aittaleb, R. Rashid, Qiong Chen, J. Palmer, C. Daniels, Hong Li (2003)
Structure and function of archaeal box C/D sRNP core proteinsNature Structural Biology, 10
A. Mccoy, R. Grosse-Kunstleve, L. Storoni, R. Read
Electronic Reprint Biological Crystallography Likelihood-enhanced Fast Translation Functions Biological Crystallography Likelihood-enhanced Fast Translation Functions
Serge Cohen, M. Jelloul, P. Knipscheer, Murshudov, A. Perrakis
Biological Crystallography Arp/warp and Molecular Replacement: the next Generation
Fibrillarin is the key methyltransferase associated with the C/D class of small nuclear ribonucleoproteins (snRNPs) and participates in the preliminary step of pre‐ribosomal rRNA processing. This molecule is found in the fibrillar regions of the eukaryotic nucleolus and is involved in methylation of the 2′‐O atom of ribose in rRNA. Human fibrillarin contains an N‐terminal GAR domain, a central RNA‐binding domain comprising an RNP‐2‐like superfamily consensus sequence and a catalytic C‐terminal helical domain. Here, Aeropyrum pernix fibrillarin is described, which is homologous to the C‐terminal domain of human fibrillarin. The protein was crystallized with an S‐adenosyl‐l‐methionine (SAM) ligand bound in the active site. The molecular structure of this complex was solved using X‐ray crystallography at a resolution of 1.7 Å using molecular replacement with fibrillarin structural homologs. The structure shows the atomic details of SAM and its active‐site interactions; there are a number of conserved residues that interact directly with the cofactor. Notably, the adenine ring of SAM is stabilized by π–π interactions with the conserved residue Phe110 and by electrostatic interactions with the Asp134, Ala135 and Gln157 residues. The π–π interaction appears to play a critical role in stabilizing the association of SAM with fibrillarin. Furthermore, comparison of A. pernix fibrillarin with homologous structures revealed different orientations of Phe110 and changes in α‐helix 6 of fibrillarin and suggests key differences in its interactions with the adenine ring of SAM in the active site and with the C/D RNA. These differences may play a key role in orienting the SAM ligand for catalysis as well as in the assembly of other ribonucleoproteins and in the interactions with C/D RNA.
Acta Crystallographica Section F – Wiley
Published: Aug 1, 2012
Read and print from thousands of top scholarly journals.
Already have an account? Log in
Bookmark this article. You can see your Bookmarks on your DeepDyve Library.
To save an article, log in first, or sign up for a DeepDyve account if you don’t already have one.
Copy and paste the desired citation format or use the link below to download a file formatted for EndNote
Access the full text.
Sign up today, get DeepDyve free for 14 days.
All DeepDyve websites use cookies to improve your online experience. They were placed on your computer when you launched this website. You can change your cookie settings through your browser.