1d8i: Difference between revisions

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-[[Image:1d8i.gif|left|200px]]
- {{Structure
+==X-RAY CRYSTAL STRUCTURE OF YEAST RNA TRIPHOSPHATASE IN COMPLEX WITH A SULFATE ION.==
-|PDB= 1d8i |SIZE=350|CAPTION= <scene name='initialview01'>1d8i</scene>, resolution 2.05&Aring;
+<StructureSection load='1d8i' size='340' side='right'caption='[[1d8i]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
+<table><tr><td colspan='2'>[[1d8i]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D8I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D8I FirstGlance]. <br>
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Polynucleotide_5'-phosphatase Polynucleotide 5'-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.33 3.1.3.33] </span>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.05&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-|DOMAIN=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d8i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d8i OCA], [https://pdbe.org/1d8i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d8i RCSB], [https://www.ebi.ac.uk/pdbsum/1d8i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d8i ProSAT]</span></td></tr>
-|RELATEDENTRY=[[1d8h|1D8H]]
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1d8i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d8i OCA], [http://www.ebi.ac.uk/pdbsum/1d8i PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1d8i RCSB]</span>
+== Function ==
-}}
+[https://www.uniprot.org/uniprot/CET1_YEAST CET1_YEAST] First step of mRNA capping. Converts the 5'-triphosphate end of a nascent mRNA chain into a diphosphate end.<ref>PMID:12788946</ref>
+== Evolutionary Conservation ==
-'''X-RAY CRYSTAL STRUCTURE OF YEAST RNA TRIPHOSPHATASE IN COMPLEX WITH A SULFATE ION.'''
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
-==Overview==
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d8/1d8i_consurf.spt"</scriptWhenChecked>
-RNA triphosphatase is an essential mRNA processing enzyme that catalyzes the first step in cap formation. The 2.05 A crystal structure of yeast RNA triphosphatase Cet1p reveals a novel active site fold whereby an eight-stranded beta barrel forms a topologically closed triphosphate tunnel. Interactions of a sulfate in the center of the tunnel with a divalent cation and basic amino acids projecting into the tunnel suggest a catalytic mechanism that is supported by mutational data. Discrete surface domains mediate Cet1p homodimerization and Cet1p binding to the guanylyltransferase component of the capping apparatus. The structure and mechanism of fungal RNA triphosphatases are completely different from those of mammalian mRNA capping enzymes. Hence, RNA triphosphatase presents an ideal target for structure-based antifungal drug discovery.
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==About this Structure==
+  </jmolCheckbox>
-D8I is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D8I OCA].
+</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=1d8i ConSurf].
+<div style="clear:both"></div>
-==Reference==
+== References ==
-Structure and mechanism of yeast RNA triphosphatase: an essential component of the mRNA capping apparatus., Lima CD, Wang LK, Shuman S, Cell. 1999 Nov 24;99(5):533-43. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10589681 10589681]
+<references/>
-[[Category: Polynucleotide 5'-phosphatase]]
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Single protein]]
+[[Category: Lima CD]]
-[[Category: Lima, C D.]]
+[[Category: Shuman S]]
-[[Category: Shuman, S.]]
+[[Category: Wang LK]]
-[[Category: Wang, L K.]]
-[[Category: beta subunit]]
-[[Category: catalytic domain]]
-[[Category: dimer]]
-[[Category: mrna capping]]
-[[Category: mrna processing]]
-[[Category: nuclear protein beta barrel]]
-[[Category: polynucleotide 5'-triphosphatase]]
-[[Category: rna triphosphatase]]
-[[Category: sulfate complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:36:45 2008''