1vio

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(New page: 200px<br /><applet load="1vio" size="450" color="white" frame="true" align="right" spinBox="true" caption="1vio, resolution 1.59&Aring;" /> '''Crystal structure of...)
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[[Image:1vio.gif|left|200px]]<br /><applet load="1vio" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1vio, resolution 1.59&Aring;" />
 
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'''Crystal structure of pseudouridylate synthase'''<br />
 
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==Overview==
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==Crystal structure of pseudouridylate synthase==
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The structure of the pseudouridine synthase RsuA from Haemophilus, influenza, which catalyzes the conversion of uridine to pseudouridine at a, single position within 16S ribosomal RNA, has been determined at 1.59 A, resolution and compared with that of Escherichia coli RsuA. The H., influenza enzyme contains an N-terminal S4-like alpha3beta4 domain, followed by a catalytic domain, as observed in the structure of E. coli, RsuA. Whereas the individual domains of E. coli and H. influenza RsuA are, structurally similar, their relative spatial disposition differs greatly, between the two structures. The former displays an extended open, conformation with no direct contacts between the domains, while the latter, is in a closed conformation with a large interface between the two, domains. Domain closure presents several basic and polar residues into a, putative RNA-binding cleft. It is proposed that this relative, repositioning of the S4 and catalytic domains is used to modulate the, shape and size of the rRNA-binding site in RsuA and in other pseudouridine, synthases possessing S4 domains.
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<StructureSection load='1vio' size='340' side='right'caption='[[1vio]], [[Resolution|resolution]] 1.59&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1vio]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VIO FirstGlance]. <br>
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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]] 1.59&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BU1:1,4-BUTANEDIOL'>BU1</scene></td></tr>
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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=1vio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vio OCA], [https://pdbe.org/1vio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vio RCSB], [https://www.ebi.ac.uk/pdbsum/1vio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vio ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RSUA_HAEIN RSUA_HAEIN] Responsible for synthesis of pseudouridine from uracil-516 in 16S ribosomal RNA (By similarity).
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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/vi/1vio_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1vio ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The structure of the pseudouridine synthase RsuA from Haemophilus influenza, which catalyzes the conversion of uridine to pseudouridine at a single position within 16S ribosomal RNA, has been determined at 1.59 A resolution and compared with that of Escherichia coli RsuA. The H. influenza enzyme contains an N-terminal S4-like alpha3beta4 domain followed by a catalytic domain, as observed in the structure of E. coli RsuA. Whereas the individual domains of E. coli and H. influenza RsuA are structurally similar, their relative spatial disposition differs greatly between the two structures. The former displays an extended open conformation with no direct contacts between the domains, while the latter is in a closed conformation with a large interface between the two domains. Domain closure presents several basic and polar residues into a putative RNA-binding cleft. It is proposed that this relative repositioning of the S4 and catalytic domains is used to modulate the shape and size of the rRNA-binding site in RsuA and in other pseudouridine synthases possessing S4 domains.
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==About this Structure==
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Structure of the pseudouridine synthase RsuA from Haemophilus influenzae.,Matte A, Louie GV, Sivaraman J, Cygler M, Burley SK Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 Apr 1;61(Pt, 4):350-4. Epub 2005 Mar 12. PMID:16511038<ref>PMID:16511038</ref>
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1VIO is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae] with BU1 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Pseudouridylate_synthase Pseudouridylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.70 4.2.1.70] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1VIO OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Structure of the pseudouridine synthase RsuA from Haemophilus influenzae., Matte A, Louie GV, Sivaraman J, Cygler M, Burley SK, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2005 Apr 1;61(Pt, 4):350-4. Epub 2005 Mar 12. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16511038 16511038]
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</div>
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[[Category: Haemophilus influenzae]]
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<div class="pdbe-citations 1vio" style="background-color:#fffaf0;"></div>
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[[Category: Pseudouridylate synthase]]
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[[Category: Single protein]]
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[[Category: GenomiX, Structural.]]
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[[Category: BU1]]
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[[Category: structural genomics]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 04:53:18 2007''
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==See Also==
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*[[Guide-independent Pseudouridine synthase|Guide-independent Pseudouridine synthase]]
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*[[Pseudouridine synthase 3D structures|Pseudouridine synthase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Haemophilus influenzae]]
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[[Category: Large Structures]]
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[[Category: Structural GenomiX]]

Current revision

Crystal structure of pseudouridylate synthase

PDB ID 1vio

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