3k3g

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{{Seed}}
 
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[[Image:3k3g.jpg|left|200px]]
 
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==Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris Bound to 1,3-dimethylurea==
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The line below this paragraph, containing "STRUCTURE_3k3g", creates the "Structure Box" on the page.
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<StructureSection load='3k3g' size='340' side='right'caption='[[3k3g]], [[Resolution|resolution]] 2.40&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'>[[3k3g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._Hildenborough Desulfovibrio vulgaris str. Hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K3G 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]] 2.4&#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=AU:GOLD+ION'>AU</scene>, <scene name='pdbligand=MMU:1,3-DIMETHYLUREA'>MMU</scene></td></tr>
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{{STRUCTURE_3k3g| PDB=3k3g | 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=3k3g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3g OCA], [https://pdbe.org/3k3g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k3g RCSB], [https://www.ebi.ac.uk/pdbsum/3k3g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3g ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UT_NITV2 UT_NITV2] Urea channel that facilitates transmembrane urea transport down a concentration gradient.<ref>PMID:19865084</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/k3/3k3g_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3k3g 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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Urea is highly concentrated in the mammalian kidney to produce the osmotic gradient necessary for water re-absorption. Free diffusion of urea across cell membranes is slow owing to its high polarity, and specialized urea transporters have evolved to achieve rapid and selective urea permeation. Here we present the 2.3 A structure of a functional urea transporter from the bacterium Desulfovibrio vulgaris. The transporter is a homotrimer, and each subunit contains a continuous membrane-spanning pore formed by the two homologous halves of the protein. The pore contains a constricted selectivity filter that can accommodate several dehydrated urea molecules in single file. Backbone and side-chain oxygen atoms provide continuous coordination of urea as it progresses through the filter, and well-placed alpha-helix dipoles provide further compensation for dehydration energy. These results establish that the urea transporter operates by a channel-like mechanism and reveal the physical and chemical basis of urea selectivity.
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===Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris Bound to 1,3-dimethylurea===
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Crystal structure of a bacterial homologue of the kidney urea transporter.,Levin EJ, Quick M, Zhou M Nature. 2009 Dec 10;462(7274):757-61. Epub . PMID:19865084<ref>PMID:19865084</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 3k3g" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19865084}}, adds the Publication Abstract to the page
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*[[Urea transporter|Urea transporter]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19865084 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19865084}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Desulfovibrio vulgaris str. Hildenborough]]
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3K3G is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3G OCA].
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[[Category: Large Structures]]
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[[Category: Levin EJ]]
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==Reference==
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[[Category: Zhou M]]
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<ref group="xtra">PMID:19865084</ref><references group="xtra"/>
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[[Category: Desulfovibrio vulgaris str. hildenborough]]
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[[Category: Levin, E J.]]
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[[Category: NYCOMPS, New York Consortium on Membrane Protein Structure.]]
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[[Category: Zhou, M.]]
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[[Category: Channel]]
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[[Category: Membrane protein]]
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[[Category: New york consortium on membrane protein structure]]
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[[Category: Nycomp]]
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[[Category: Protein structure initiative]]
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[[Category: Psi-2]]
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[[Category: Structural genomic]]
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[[Category: Transport protein]]
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[[Category: Transporter]]
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[[Category: Urea transport]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 18 19:45:27 2009''
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Current revision

Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris Bound to 1,3-dimethylurea

PDB ID 3k3g

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