3iga: Difference between revisions

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-{{Seed}}
-[[Image:3iga.png|left|200px]]
-<!--
+==Potassium Channel KcsA-Fab complex in Li+ and K+==
-The line below this paragraph, containing "STRUCTURE_3iga", creates the "Structure Box" on the page.
+<StructureSection load='3iga' size='340' side='right'caption='[[3iga]], [[Resolution|resolution]] 2.75&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3iga]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [https://en.wikipedia.org/wiki/Streptomyces_lividans Streptomyces lividans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IGA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IGA FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.75&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DGA:DIACYL+GLYCEROL'>DGA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
-{{STRUCTURE_3iga|  PDB=3iga  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3iga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iga OCA], [https://pdbe.org/3iga PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iga RCSB], [https://www.ebi.ac.uk/pdbsum/3iga PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iga ProSAT]</span></td></tr>
+</table>
+== Function ==
+[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>
+== 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/ig/3iga_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3iga ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Potassium channels allow K(+) ions to diffuse through their pores while preventing smaller Na(+) ions from permeating. Discrimination between these similar, abundant ions enables these proteins to control electrical and chemical activity in all organisms. Selection occurs at the narrow selectivity filter containing structurally identified K(+) binding sites. Selectivity is thought to arise because smaller ions such as Na(+) do not bind to these K(+) sites in a thermodynamically favorable way. Using the model K(+) channel KcsA, we examined how intracellular Na(+) and Li(+) interact with the pore and the permeant ions using electrophysiology, molecular dynamics simulations and X-ray crystallography. Our results suggest that these small cations have a separate binding site within the K(+) selectivity filter. We propose that selective permeation from the intracellular side primarily results from a large energy barrier blocking filter entry for Na(+) and Li(+) in the presence of K(+), not from a difference of binding affinity between ions.
-===Potassium Channel KcsA-Fab complex in Li+ and K+===
+Mechanism of potassium-channel selectivity revealed by Na(+) and Li(+) binding sites within the KcsA pore.,Thompson AN, Kim I, Panosian TD, Iverson TM, Allen TW, Nimigean CM Nat Struct Mol Biol. 2009 Dec;16(12):1317-24. Epub 2009 Nov 29. PMID:19946269<ref>PMID:19946269</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3iga" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-IGA is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/Streptomyces_lividans Streptomyces lividans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IGA OCA].
+*[[Antibody 3D structures|Antibody 3D structures]]
+*[[Potassium channel 3D structures|Potassium channel 3D structures]]
+*[[3D structures of non-human antibody|3D structures of non-human antibody]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Mus musculus]]
 [[Category: Streptomyces lividans]]
-[[Category: Allen, T W.]]
+[[Category: Allen TW]]
-[[Category: Ilsoo, K.]]
+[[Category: Ilsoo K]]
-[[Category: Iverson, T M.]]
+[[Category: Iverson TM]]
-[[Category: Nimigean, C M.]]
+[[Category: Nimigean CM]]
-[[Category: Panosian, T D.]]
+[[Category: Panosian TD]]
-[[Category: Thompson, A N]]
+[[Category: Thompson AN]]
-[[Category: Cell membrane]]
-[[Category: Ion transport]]
-[[Category: Ionic channel]]
-[[Category: Kcsa]]
-[[Category: Lithium]]
-[[Category: Lithium block]]
-[[Category: Membrane]]
-[[Category: Membrane protein]]
-[[Category: Potassium channel]]
-[[Category: Transmembrane]]
-[[Category: Transport]]
-[[Category: Transport protein]]
-[[Category: Voltage-gated channel]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec  2 09:20:41 2009''