2qto

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{{Seed}}
 
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[[Image:2qto.png|left|200px]]
 
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==An anisotropic model for potassium channel KcsA==
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The line below this paragraph, containing "STRUCTURE_2qto", creates the "Structure Box" on the page.
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<StructureSection load='2qto' size='340' side='right'caption='[[2qto]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2qto]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_lividans Streptomyces lividans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QTO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QTO FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.201&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></td></tr>
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{{STRUCTURE_2qto| PDB=2qto | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2qto FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qto OCA], [https://pdbe.org/2qto PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qto RCSB], [https://www.ebi.ac.uk/pdbsum/2qto PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qto ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/KCSA_STRLI KCSA_STRLI] Acts as a pH-gated potassium ion channel; changing the cytosolic pH from 7 to 4 opens the channel, although it is not clear if this is the physiological stimulus for channel opening. Monovalent cation preference is K(+) > Rb(+) > NH4(+) >> Na(+) > Li(+).<ref>PMID:7489706</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qt/2qto_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2qto ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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We report a normal-mode method for anisotropic refinement of membrane-protein structures, based on a hypothesis that the global near-native-state disordering of membrane proteins in crystals follows low-frequency normal modes. Thus, a small set of modes is sufficient to represent the anisotropic thermal motions in X-ray crystallographic refinement. By applying the method to potassium channel KcsA at 3.2 A, we obtained a structural model with an improved fit with the diffraction data. Moreover, the improved electron density maps allowed for large structural adjustments for 12 residues in each subunit, including the rebuilding of 3 missing side chains. Overall, the anisotropic KcsA structure at 3.2 A was systematically closer to a 2.0 A KcsA structure, especially in the selectivity filter. Furthermore, the anisotropic thermal ellipsoids from the refinement revealed functionally relevant structural flexibility. We expect this method to be a valuable tool for structural refinement of many membrane proteins with moderate-resolution diffraction data.
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===An anisotropic model for potassium channel KcsA===
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Normal-mode refinement of anisotropic thermal parameters for potassium channel KcsA at 3.2 A crystallographic resolution.,Chen X, Poon BK, Dousis A, Wang Q, Ma J Structure. 2007 Aug;15(8):955-62. PMID:17698000<ref>PMID:17698000</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2qto" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_17698000}}, adds the Publication Abstract to the page
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*[[Potassium channel 3D structures|Potassium channel 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 17698000 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17698000}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2QTO is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Streptomyces_lividans Streptomyces lividans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QTO OCA].
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==Reference==
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<ref group="xtra">PMID:17698000</ref><references group="xtra"/>
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[[Category: Streptomyces lividans]]
[[Category: Streptomyces lividans]]
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[[Category: Chen, X.]]
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[[Category: Chen X]]
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[[Category: Dousis, A.]]
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[[Category: Dousis A]]
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[[Category: Ma, J.]]
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[[Category: Ma J]]
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[[Category: Poon, B K.]]
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[[Category: Poon BK]]
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[[Category: Wang, Q.]]
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[[Category: Wang Q]]
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[[Category: Anisotropic thermal factor]]
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[[Category: Membrane protein]]
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[[Category: Membrane protein]]
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[[Category: Metal transport]]
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[[Category: Normal-mode refinement]]
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[[Category: Potassium channel]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 14:01:58 2009''
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Current revision

An anisotropic model for potassium channel KcsA

PDB ID 2qto

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