1sj4

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[[Image:1sj4.gif|left|200px]]
 
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{{Structure
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==Crystal structure of a C75U mutant Hepatitis Delta Virus ribozyme precursor, in Cu2+ solution==
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|PDB= 1sj4 |SIZE=350|CAPTION= <scene name='initialview01'>1sj4</scene>, resolution 2.70&Aring;
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<StructureSection load='1sj4' size='340' side='right'caption='[[1sj4]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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<table><tr><td colspan='2'>[[1sj4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Hepatitis_delta_virus Hepatitis delta virus] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SJ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SJ4 FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#8491;</td></tr>
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|GENE= SNRPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1sj4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sj4 OCA], [https://pdbe.org/1sj4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sj4 RCSB], [https://www.ebi.ac.uk/pdbsum/1sj4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sj4 ProSAT]</span></td></tr>
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|DOMAIN=
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</table>
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|RELATEDENTRY=[[1cx0|1CX0]], [[1drz|1DRZ]]
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== Function ==
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1sj4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sj4 OCA], [http://www.ebi.ac.uk/pdbsum/1sj4 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1sj4 RCSB]</span>
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[https://www.uniprot.org/uniprot/SNRPA_HUMAN SNRPA_HUMAN] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.<ref>PMID:9848648</ref>
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}}
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sj/1sj4_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1sj4 ConSurf].
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<div style="clear:both"></div>
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'''Crystal structure of a C75U mutant Hepatitis Delta Virus ribozyme precursor, in Cu2+ solution'''
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==See Also==
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*[[Nucleoprotein 3D structures|Nucleoprotein 3D structures]]
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*[[Ribozyme 3D structures|Ribozyme 3D structures]]
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==Overview==
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== References ==
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Ribozymes enhance chemical reaction rates using many of the same catalytic strategies as protein enzymes. In the hepatitis delta virus (HDV) ribozyme, site-specific self-cleavage of the viral RNA phosphodiester backbone requires both divalent cations and a cytidine nucleotide. General acid-base catalysis, substrate destabilization and global and local conformational changes have all been proposed to contribute to the ribozyme catalytic mechanism. Here we report ten crystal structures of the HDV ribozyme in its pre-cleaved state, showing that cytidine is positioned to activate the 2'-OH nucleophile in the precursor structure. This observation supports its proposed role as a general base in the reaction mechanism. Comparison of crystal structures of the ribozyme in the pre- and post-cleavage states reveals a significant conformational change in the RNA after cleavage and that a catalytically critical divalent metal ion from the active site is ejected. The HDV ribozyme has remarkable chemical similarity to protein ribonucleases and to zymogens for which conformational dynamics are integral to biological activity. This finding implies that RNA structural rearrangements control the reactivity of ribozymes and ribonucleoprotein enzymes.
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<references/>
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__TOC__
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==About this Structure==
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</StructureSection>
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1SJ4 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Hepatitis_delta_virus Hepatitis delta virus] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SJ4 OCA].
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==Reference==
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A conformational switch controls hepatitis delta virus ribozyme catalysis., Ke A, Zhou K, Ding F, Cate JH, Doudna JA, Nature. 2004 May 13;429(6988):201-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15141216 15141216]
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[[Category: Hepatitis delta virus]]
[[Category: Hepatitis delta virus]]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Cate, J H.]]
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[[Category: Cate JH]]
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[[Category: Ding, F.]]
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[[Category: Ding F]]
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[[Category: Doudna, J A.]]
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[[Category: Doudna JA]]
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[[Category: Ke, A.]]
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[[Category: Ke A]]
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[[Category: Zhou, K.]]
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[[Category: Zhou K]]
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[[Category: hdv]]
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[[Category: precurosr]]
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[[Category: ribozyme]]
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[[Category: rna]]
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[[Category: u1a]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:42:41 2008''
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Current revision

Crystal structure of a C75U mutant Hepatitis Delta Virus ribozyme precursor, in Cu2+ solution

PDB ID 1sj4

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