2kim: Difference between revisions

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-[[Image:2kim.png|left|200px]]
-{{STRUCTURE_2kim|  PDB=2kim  |  SCENE=  }}
+==1.7-mm microcryoprobe solution NMR structure of an O6-methylguanine DNA methyltransferase family protein from Vibrio parahaemolyticus. Northeast Structural Genomics Consortium target VpR247.==
+<StructureSection load='2kim' size='340' side='right'caption='[[2kim]]' scene=''>
-===1.7-mm microcryoprobe solution NMR structure of an O6-methylguanine DNA methyltransferase family protein from Vibrio parahaemolyticus. Northeast Structural Genomics Consortium target VpR247.===
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2kim]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_parahaemolyticus_AQ3810 Vibrio parahaemolyticus AQ3810]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KIM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KIM FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-==About this Structure==
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2kim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kim OCA], [https://pdbe.org/2kim PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kim RCSB], [https://www.ebi.ac.uk/pdbsum/2kim PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kim ProSAT], [https://www.topsan.org/Proteins/NESGC/2kim TOPSAN]</span></td></tr>
-[[2kim]] is a 1 chain structure of [[DNA methyltransferase]] with sequence from [http://en.wikipedia.org/wiki/Vibrio_parahaemolyticus_aq3810 Vibrio parahaemolyticus aq3810]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KIM OCA].
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ATL_VIBPQ ATL_VIBPQ] Involved in DNA damage recognition. Binds DNA containing O(6)-methylguanine (PubMed:20212037). Binds to the damaged base and flips the base out of the DNA duplex into an extrahelical conformation, which allows processing by repair proteins (By similarity).[UniProtKB:P0AFP2]<ref>PMID:20212037</ref>
+== 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/ki/2kim_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=2kim ConSurf].
+<div style="clear:both"></div>
 ==See Also==
-*[[DNA methyltransferase|DNA methyltransferase]]
+*[[DNA methyltransferase 3D structures|DNA methyltransferase 3D structures]]
-[[Category: Vibrio parahaemolyticus aq3810]]
+== References ==
-[[Category: Acton, T B.]]
+<references/>
-[[Category: Aramini, J M.]]
+__TOC__
-[[Category: Belote, R L.]]
+</StructureSection>
-[[Category: Ciccosanti, C T.]]
+[[Category: Large Structures]]
-[[Category: Everett, J K.]]
+[[Category: Vibrio parahaemolyticus AQ3810]]
-[[Category: Jiang, M.]]
+[[Category: Acton TB]]
-[[Category: Montelione, G T.]]
+[[Category: Aramini JM]]
-[[Category: NESG, Northeast Structural Genomics Consortium.]]
+[[Category: Belote RL]]
-[[Category: Nair, R.]]
+[[Category: Ciccosanti CT]]
-[[Category: Rost, B.]]
+[[Category: Everett JK]]
-[[Category: Swapna, G V.T]]
+[[Category: Jiang M]]
-[[Category: Xiao, R.]]
+[[Category: Montelione GT]]
-[[Category: Dna base repair]]
+[[Category: Nair R]]
-[[Category: Methods development]]
+[[Category: Rost B]]
-[[Category: Methyltransferase]]
+[[Category: Swapna GVT]]
-[[Category: Nesg]]
+[[Category: Xiao R]]
-[[Category: Northeast structural genomics consortium]]
-[[Category: O6 methylguanine methyltransferase]]
-[[Category: Protein structure initiative]]
-[[Category: Psi-2]]
-[[Category: Solution nmr structure]]
-[[Category: Structural genomic]]
-[[Category: Transferase]]