5z1w
From Proteopedia
(Difference between revisions)
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==Cryo-EM structure of polycystic kidney disease-like channel PKD2L1== | ==Cryo-EM structure of polycystic kidney disease-like channel PKD2L1== | ||
| - | <StructureSection load='5z1w' size='340' side='right' caption='[[5z1w]], [[Resolution|resolution]] 3.38Å' scene=''> | + | <StructureSection load='5z1w' size='340' side='right'caption='[[5z1w]], [[Resolution|resolution]] 3.38Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[5z1w]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z1W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z1W FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5z1w]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z1W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z1W FirstGlance]. <br> |
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr> | ||
| + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Pkd2l1, Trpp3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=5z1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z1w OCA], [http://pdbe.org/5z1w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z1w RCSB], [http://www.ebi.ac.uk/pdbsum/5z1w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z1w ProSAT]</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=5z1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z1w OCA], [http://pdbe.org/5z1w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z1w RCSB], [http://www.ebi.ac.uk/pdbsum/5z1w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z1w ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
[[http://www.uniprot.org/uniprot/PK2L1_MOUSE PK2L1_MOUSE]] Pore-forming subunit of a ciliary calcium channel that controls calcium concentration within primary cilia without affecting cytoplasmic calcium concentration. Forms a heterodimer with PKD1L1 in primary cilia and forms a calcium-permeant ciliary channel that regulates sonic hedgehog/SHH signaling and GLI2 transcription. May act as a sour taste receptor by forming a calcium channel with PKD1L3 in gustatory cells; however, its contribution to sour taste perception is unclear in vivo and may be indirect. May play a role in the perception of carbonation taste.<ref>PMID:15548533</ref> <ref>PMID:16891422</ref> <ref>PMID:16929298</ref> <ref>PMID:19833970</ref> <ref>PMID:21098668</ref> <ref>PMID:21625513</ref> <ref>PMID:24336288</ref> <ref>PMID:24336289</ref> | [[http://www.uniprot.org/uniprot/PK2L1_MOUSE PK2L1_MOUSE]] Pore-forming subunit of a ciliary calcium channel that controls calcium concentration within primary cilia without affecting cytoplasmic calcium concentration. Forms a heterodimer with PKD1L1 in primary cilia and forms a calcium-permeant ciliary channel that regulates sonic hedgehog/SHH signaling and GLI2 transcription. May act as a sour taste receptor by forming a calcium channel with PKD1L3 in gustatory cells; however, its contribution to sour taste perception is unclear in vivo and may be indirect. May play a role in the perception of carbonation taste.<ref>PMID:15548533</ref> <ref>PMID:16891422</ref> <ref>PMID:16929298</ref> <ref>PMID:19833970</ref> <ref>PMID:21098668</ref> <ref>PMID:21625513</ref> <ref>PMID:24336288</ref> <ref>PMID:24336289</ref> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | PKD2L1, also termed TRPP3 from the TRPP subfamily (polycystic TRP channels), is involved in the sour sensation and other pH-dependent processes. PKD2L1 is believed to be a nonselective cation channel that can be regulated by voltage, protons, and calcium. Despite its considerable importance, the molecular mechanisms underlying PKD2L1 regulations are largely unknown. Here, we determine the PKD2L1 atomic structure at 3.38 A resolution by cryo-electron microscopy, whereby side chains of nearly all residues are assigned. Unlike its ortholog PKD2, the pore helix (PH) and transmembrane segment 6 (S6) of PKD2L1, which are involved in upper and lower-gate opening, adopt an open conformation. Structural comparisons of PKD2L1 with a PKD2-based homologous model indicate that the pore domain dilation is coupled to conformational changes of voltage-sensing domains (VSDs) via a series of pi-pi interactions, suggesting a potential PKD2L1 gating mechanism. | ||
| + | |||
| + | Cryo-EM structure of the polycystic kidney disease-like channel PKD2L1.,Su Q, Hu F, Liu Y, Ge X, Mei C, Yu S, Shen A, Zhou Q, Yan C, Lei J, Zhang Y, Liu X, Wang T Nat Commun. 2018 Mar 22;9(1):1192. doi: 10.1038/s41467-018-03606-0. PMID:29567962<ref>PMID:29567962</ref> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 5z1w" style="background-color:#fffaf0;"></div> | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Lk3 transgenic mice]] | ||
[[Category: Zhang, Y Q]] | [[Category: Zhang, Y Q]] | ||
[[Category: Channel]] | [[Category: Channel]] | ||
[[Category: Cryo-em]] | [[Category: Cryo-em]] | ||
[[Category: Membrane protein]] | [[Category: Membrane protein]] | ||
Revision as of 06:33, 17 April 2019
Cryo-EM structure of polycystic kidney disease-like channel PKD2L1
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