2dv3: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:2dv3.jpg|left|200px]]<br /><applet load="2dv3" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="2dv3, resolution 1.90&Aring;" />
-'''Crystal structure of Leu65 to Arg mutant of Diphthine synthase'''<br />
-==About this Structure==
+==Crystal structure of Leu65 to Arg mutant of Diphthine synthase==
-DV3 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii] with NA, CL, SAH, GOL and FMT as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Diphthine_synthase Diphthine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.98 2.1.1.98] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2DV3 OCA].
+<StructureSection load='2dv3' size='340' side='right'caption='[[2dv3]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
-[[Category: Diphthine synthase]]
+== Structural highlights ==
-[[Category: Pyrococcus horikoshii]]
+<table><tr><td colspan='2'>[[2dv3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DV3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DV3 FirstGlance]. <br>
-[[Category: Single protein]]
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
-[[Category: Kunishima, N.]]
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene></td></tr>
-[[Category: Matsuura, Y.]]
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dv3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dv3 OCA], [https://pdbe.org/2dv3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dv3 RCSB], [https://www.ebi.ac.uk/pdbsum/2dv3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dv3 ProSAT], [https://www.topsan.org/Proteins/RSGI/2dv3 TOPSAN]</span></td></tr>
-[[Category: Mizutani, H.]]
+</table>
-[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
+== Function ==
-[[Category: CL]]
+[https://www.uniprot.org/uniprot/DPHB_PYRHO DPHB_PYRHO] S-adenosyl-L-methionine-dependent methyltransferase that catalyzes the trimethylation of the amino group of the modified target histidine residue in translation elongation factor 2 (EF-2), to form an intermediate called diphthine. The three successive methylation reactions represent the second step of diphthamide biosynthesis.<ref>PMID:20873788</ref>
-[[Category: FMT]]
+== Evolutionary Conservation ==
-[[Category: GOL]]
+[[Image:Consurf_key_small.gif|200px|right]]
-[[Category: NA]]
+Check<jmol>
-[[Category: SAH]]
+  <jmolCheckbox>
-[[Category: national project on protein structural and functional analyses]]
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/2dv3_consurf.spt"</scriptWhenChecked>
-[[Category: nppsfa]]
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-[[Category: riken structural genomics/proteomics initiative]]
+    <text>to colour the structure by Evolutionary Conservation</text>
-[[Category: rsgi]]
+  </jmolCheckbox>
-[[Category: structural genomics]]
+</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=2dv3 ConSurf].
-[[Category: transferase]]
+<div style="clear:both"></div>
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 09:47:51 2007''
+==See Also==
+*[[Diphthine synthase|Diphthine synthase]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Pyrococcus horikoshii OT3]]
+[[Category: Kunishima N]]
+[[Category: Matsuura Y]]
+[[Category: Mizutani H]]