2kim: Difference between revisions

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 ==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]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='2kim' size='340' side='right'caption='[[2kim]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2kim]] is a 1 chain structure 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]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KIM FirstGlance]. <br>
+<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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2kif|2kif]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">A79_1377, VP0951 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=419109 Vibrio parahaemolyticus AQ3810])</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=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>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2kim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kim OCA], [http://pdbe.org/2kim PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kim RCSB], [http://www.ebi.ac.uk/pdbsum/2kim PDBsum], [http://www.topsan.org/Proteins/NESGC/2kim TOPSAN]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/A6B4U8_VIBPH A6B4U8_VIBPH]] 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>
+[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>
+     <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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Vibrio parahaemolyticus aq3810]]
+[[Category: Large Structures]]
-[[Category: Acton, T B]]
+[[Category: Vibrio parahaemolyticus AQ3810]]
-[[Category: Aramini, J M]]
+[[Category: Acton TB]]
-[[Category: Belote, R L]]
+[[Category: Aramini JM]]
-[[Category: Ciccosanti, C T]]
+[[Category: Belote RL]]
-[[Category: Everett, J K]]
+[[Category: Ciccosanti CT]]
-[[Category: Jiang, M]]
+[[Category: Everett JK]]
-[[Category: Montelione, G T]]
+[[Category: Jiang M]]
-[[Category: Structural genomic]]
+[[Category: Montelione GT]]
-[[Category: Nair, R]]
+[[Category: Nair R]]
-[[Category: Rost, B]]
+[[Category: Rost B]]
-[[Category: Swapna, G V.T]]
+[[Category: Swapna GVT]]
-[[Category: Xiao, R]]
+[[Category: Xiao R]]
-[[Category: Dna base repair]]
-[[Category: Methods development]]
-[[Category: Methyltransferase]]
-[[Category: Nesg]]
-[[Category: O6 methylguanine methyltransferase]]
-[[Category: PSI, Protein structure initiative]]
-[[Category: Solution nmr structure]]
-[[Category: Transferase]]