3k3g
From Proteopedia
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| - | {{STRUCTURE_3k3g| PDB=3k3g | SCENE= }} | ||
| - | ===Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris Bound to 1,3-dimethylurea=== | ||
| - | {{ABSTRACT_PUBMED_19865084}} | ||
| - | == | + | ==Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris Bound to 1,3-dimethylurea== |
| - | [[3k3g]] is a 1 chain structure with sequence from [ | + | <StructureSection load='3k3g' size='340' side='right'caption='[[3k3g]], [[Resolution|resolution]] 2.40Å' scene=''> |
| + | == Structural highlights == | ||
| + | <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> | ||
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4Å</td></tr> | ||
| + | <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> | ||
| + | <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> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/UT_NITV2 UT_NITV2] Urea channel that facilitates transmembrane urea transport down a concentration gradient.<ref>PMID:19865084</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/k3/3k3g_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=3k3g ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | 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 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®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 3k3g" style="background-color:#fffaf0;"></div> | ||
==See Also== | ==See Also== | ||
*[[Urea transporter|Urea transporter]] | *[[Urea transporter|Urea transporter]] | ||
| - | + | == References == | |
| - | == | + | <references/> |
| - | < | + | __TOC__ |
| - | [[Category: Desulfovibrio vulgaris]] | + | </StructureSection> |
| - | [[Category: | + | [[Category: Desulfovibrio vulgaris str. Hildenborough]] |
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: Zhou | + | [[Category: Levin EJ]] |
| - | + | [[Category: Zhou M]] | |
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Current revision
Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris Bound to 1,3-dimethylurea
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