2cw8: Difference between revisions

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

OCA

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-[[Image:2cw8.gif|left|200px]]<br /><applet load="2cw8" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="2cw8, resolution 2.50&Aring;" />
-'''Crystal structure of intein homing endonuclease II'''<br />
-==About this Structure==
+==Crystal structure of intein homing endonuclease II==
-CW8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis] with SO4 and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2CW8 OCA].
+<StructureSection load='2cw8' size='340' side='right'caption='[[2cw8]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2cw8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis_KOD1 Thermococcus kodakarensis KOD1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CW8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CW8 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2cw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cw8 OCA], [https://pdbe.org/2cw8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cw8 RCSB], [https://www.ebi.ac.uk/pdbsum/2cw8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cw8 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/DPOL_THEKO DPOL_THEKO] Intein encoded endonucleases are thought to mediate intein mobility by site-specific recombination initiated by endonuclease cleavage at the "homing site" in gene that lack the intein. PI-PkoI recognizes 5'-GATTTAGATCCCTGTACC-3' and PI-PkoII recognizes 5'-CAGCTACTACGGTTAC-3'.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cw/2cw8_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=2cw8 ConSurf].
+<div style="clear:both"></div>
-==Reference==
+==See Also==
-Crystal structure of intein homing endonuclease II encoded in DNA polymerase gene from hyperthermophilic archaeon Thermococcus kodakaraensis strain KOD1., Matsumura H, Takahashi H, Inoue T, Yamamoto T, Hashimoto H, Nishioka M, Fujiwara S, Takagi M, Imanaka T, Kai Y, Proteins. 2006 May 15;63(3):711-5. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16493661 16493661]
+*[[Endonuclease 3D structures|Endonuclease 3D structures]]
-[[Category: Single protein]]
+__TOC__
-[[Category: Thermococcus kodakarensis]]
+</StructureSection>
-[[Category: Fujiwara, S.]]
+[[Category: Large Structures]]
-[[Category: Hashimoto, H.]]
+[[Category: Thermococcus kodakarensis KOD1]]
-[[Category: Imanaka, T.]]
+[[Category: Fujiwara S]]
-[[Category: Inoue, T.]]
+[[Category: Hashimoto H]]
-[[Category: Kai, Y.]]
+[[Category: Imanaka T]]
-[[Category: Matsumura, H.]]
+[[Category: Inoue T]]
-[[Category: Nishioka, M.]]
+[[Category: Kai Y]]
-[[Category: Takagi, M.]]
+[[Category: Matsumura H]]
-[[Category: Takahashi, H.]]
+[[Category: Nishioka M]]
-[[Category: GOL]]
+[[Category: Takagi M]]
-[[Category: SO4]]
+[[Category: Takahashi H]]
-[[Category: hydrolase]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 09:18:12 2007''