6dmr - Revision history

OCA at 14:35, 13 March 2024

2024-03-13T14:35:41Z

←Older revision		Revision as of 14:35, 13 March 2024
Line 3:		Line 3:
	<SX load='6dmr' size='340' side='right' viewer='molstar' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>		<SX load='6dmr' size='340' side='right' viewer='molstar' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~European_rabbit European rabbit~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6DMR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DMR FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Trpv5~~, ~~Ecac1 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=9986 European rabbit])~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.9Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [~~http~~://pdbe.org/6dmr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></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=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [https://pdbe.org/6dmr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [https://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TRPV5_RABIT TRPV5_RABIT]] Constitutively active calcium selective cation channel thought to be involved in Ca(2+) reabsorption in kidney and intestine (PubMed:12574114). Required for normal Ca(2+) reabsorption in the kidney distal convoluted tubules (By similarity). The channel is activated by low internal calcium level and the current exhibits an inward rectification (By similarity). A Ca(2+)-dependent feedback regulation includes fast channel inactivation and slow current decay (By similarity). Heteromeric assembly with TRPV6 seems to modify channel properties. TRPV5-TRPV6 heteromultimeric concatemers exhibit voltage-dependent gating (PubMed:12574114).[UniProtKB:P69744][UniProtKB:Q9NQA5]<ref>PMID:10085067</ref> <ref>PMID:11035011</ref> <ref>PMID:12574114</ref>	+	[https://www.uniprot.org/uniprot/TRPV5_RABIT TRPV5_RABIT] Constitutively active calcium selective cation channel thought to be involved in Ca(2+) reabsorption in kidney and intestine (PubMed:12574114). Required for normal Ca(2+) reabsorption in the kidney distal convoluted tubules (By similarity). The channel is activated by low internal calcium level and the current exhibits an inward rectification (By similarity). A Ca(2+)-dependent feedback regulation includes fast channel inactivation and slow current decay (By similarity). Heteromeric assembly with TRPV6 seems to modify channel properties. TRPV5-TRPV6 heteromultimeric concatemers exhibit voltage-dependent gating (PubMed:12574114).[UniProtKB:P69744][UniProtKB:Q9NQA5]<ref>PMID:10085067</ref> <ref>PMID:11035011</ref> <ref>PMID:12574114</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	TRPV5 is a transient receptor potential channel involved in calcium reabsorption. Here we investigate the interaction of two endogenous modulators with TRPV5. Both phosphatidylinositol 4,5-bisphosphate (PI(4,5)P2) and calmodulin (CaM) have been shown to directly bind to TRPV5 and activate or inactivate the channel, respectively. Using cryo-electron microscopy (cryo-EM), we determined TRPV5 structures in the presence of dioctanoyl PI(4,5)P2 and CaM. The PI(4,5)P2 structure reveals a binding site between the N-linker, S4-S5 linker and S6 helix of TRPV5. These interactions with PI(4,5)P2 induce conformational rearrangements in the lower gate, opening the channel. The CaM structure reveals two TRPV5 C-terminal peptides anchoring a single CaM molecule and that calcium inhibition is mediated through a cation-pi interaction between Lys116 on the C-lobe of calcium-activated CaM and Trp583 at the intracellular gate of TRPV5. Overall, this investigation provides insight into the endogenous modulation of TRPV5, which has the potential to guide drug discovery.	+

-	Structural insights on TRPV5 gating by endogenous modulators.,Hughes TET, Pumroy RA, Yazici AT, Kasimova MA, Fluck EC, Huynh KW, Samanta A, Molugu SK, Zhou ZH, Carnevale V, Rohacs T, Moiseenkova-Bell VY Nat Commun. 2018 Oct 10;9(1):4198. doi: 10.1038/s41467-018-06753-6. PMID:30305626<ref>PMID:30305626</ref>	+	==See Also==
-		+	*[[Ion channels 3D structures\|Ion channels 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 6dmr" style~~=~~"background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: European rabbit]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hughes, T E.T~~]]	+	[[Category: Oryctolagus cuniculus]]
-	[[Category: ~~Moiseenkova-Bell, V Y~~]]	+	[[Category: Hughes TET]]
-	[[Category: ~~Pumroy, R A]]~~	+	[[Category: Moiseenkova-Bell VY]]
-	~~[[Category: Calcium channel]]~~	+	[[Category: Pumroy RA]]
-	~~[[Category: Full~~-~~length~~]]	+
-	[[Category: ~~Lipid-bound]]~~	+
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Trpv5~~]]	+

OCA at 00:07, 11 April 2020

2020-04-11T00:07:24Z

←Older revision		Revision as of 00:07, 11 April 2020
Line 3:		Line 3:
	<SX load='6dmr' size='340' side='right' viewer='molstar' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>		<SX load='6dmr' size='340' side='right' viewer='molstar' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6DMR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6DMR FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Trpv5, Ecac1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9986 European rabbit])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Trpv5, Ecac1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9986 European rabbit])</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=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [http://pdbe.org/6dmr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [http://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [http://pdbe.org/6dmr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [http://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 20:55, 6 March 2020

2020-03-06T20:55:38Z

←Older revision		Revision as of 20:55, 6 March 2020
Line 1:		Line 1:

	==Lipid-bound full-length rbTRPV5==		==Lipid-bound full-length rbTRPV5==
-	<~~StructureSection~~ load='6dmr' size='340' side='right'caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>	+	<SX load='6dmr' size='340' side='right' viewer='molstar' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DMR FirstGlance]. <br>		<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DMR FirstGlance]. <br>
Line 21:		Line 21:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: European rabbit]]		[[Category: European rabbit]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 08:53, 8 January 2020

2020-01-08T08:53:20Z

←Older revision		Revision as of 08:53, 8 January 2020
Line 1:		Line 1:

	==Lipid-bound full-length rbTRPV5==		==Lipid-bound full-length rbTRPV5==
-	<StructureSection load='6dmr' size='340' side='right' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>	+	<StructureSection load='6dmr' size='340' side='right'caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DMR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DMR FirstGlance]. <br>
-	</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=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [http://pdbe.org/6dmr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [http://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Trpv5, Ecac1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9986 European rabbit])</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=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [http://pdbe.org/6dmr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [http://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: European rabbit]]
		+	[[Category: Large Structures]]
	[[Category: Hughes, T E.T]]		[[Category: Hughes, T E.T]]
	[[Category: Moiseenkova-Bell, V Y]]		[[Category: Moiseenkova-Bell, V Y]]

OCA at 05:53, 24 October 2018

2018-10-24T05:53:56Z

←Older revision		Revision as of 05:53, 24 October 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6dmr is ~~ON HOLD~~	+	==Lipid-bound full-length rbTRPV5==
		+	<StructureSection load='6dmr' size='340' side='right' caption='[[6dmr]], [[Resolution\|resolution]] 3.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6dmr]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DMR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DMR FirstGlance]. <br>
		+	</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=6dmr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dmr OCA], [http://pdbe.org/6dmr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dmr RCSB], [http://www.ebi.ac.uk/pdbsum/6dmr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dmr ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TRPV5_RABIT TRPV5_RABIT]] Constitutively active calcium selective cation channel thought to be involved in Ca(2+) reabsorption in kidney and intestine (PubMed:12574114). Required for normal Ca(2+) reabsorption in the kidney distal convoluted tubules (By similarity). The channel is activated by low internal calcium level and the current exhibits an inward rectification (By similarity). A Ca(2+)-dependent feedback regulation includes fast channel inactivation and slow current decay (By similarity). Heteromeric assembly with TRPV6 seems to modify channel properties. TRPV5-TRPV6 heteromultimeric concatemers exhibit voltage-dependent gating (PubMed:12574114).[UniProtKB:P69744][UniProtKB:Q9NQA5]<ref>PMID:10085067</ref> <ref>PMID:11035011</ref> <ref>PMID:12574114</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	TRPV5 is a transient receptor potential channel involved in calcium reabsorption. Here we investigate the interaction of two endogenous modulators with TRPV5. Both phosphatidylinositol 4,5-bisphosphate (PI(4,5)P2) and calmodulin (CaM) have been shown to directly bind to TRPV5 and activate or inactivate the channel, respectively. Using cryo-electron microscopy (cryo-EM), we determined TRPV5 structures in the presence of dioctanoyl PI(4,5)P2 and CaM. The PI(4,5)P2 structure reveals a binding site between the N-linker, S4-S5 linker and S6 helix of TRPV5. These interactions with PI(4,5)P2 induce conformational rearrangements in the lower gate, opening the channel. The CaM structure reveals two TRPV5 C-terminal peptides anchoring a single CaM molecule and that calcium inhibition is mediated through a cation-pi interaction between Lys116 on the C-lobe of calcium-activated CaM and Trp583 at the intracellular gate of TRPV5. Overall, this investigation provides insight into the endogenous modulation of TRPV5, which has the potential to guide drug discovery.

-	~~Authors: Hughes, T.E.T~~., Pumroy, R.A., Moiseenkova-Bell~~, V~~.Y.	+	Structural insights on TRPV5 gating by endogenous modulators.,Hughes TET, Pumroy RA, Yazici AT, Kasimova MA, Fluck EC, Huynh KW, Samanta A, Molugu SK, Zhou ZH, Carnevale V, Rohacs T, Moiseenkova-Bell VY Nat Commun. 2018 Oct 10;9(1):4198. doi: 10.1038/s41467-018-06753-6. PMID:30305626<ref>PMID:30305626</ref>

-	~~Description: Lipid~~-~~bound full~~-~~length rbTRPV5~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Hughes~~, ~~T.E.T~~]]	+	<div class="pdbe-citations 6dmr" style="background-color:#fffaf0;"></div>
-	[[Category: Pumroy, R.A]]	+	== References ==
-	[[Category: ~~Moiseenkova~~-~~Bell, V.Y~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Hughes, T E.T]]
		+	[[Category: Moiseenkova-Bell, V Y]]
		+	[[Category: Pumroy, R A]]
		+	[[Category: Calcium channel]]
		+	[[Category: Full-length]]
		+	[[Category: Lipid-bound]]
		+	[[Category: Transport protein]]
		+	[[Category: Trpv5]]

OCA: Protected "6dmr" [edit=sysop:move=sysop]

2018-06-14T05:44:07Z

Protected "6dmr" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:44, 14 June 2018

OCA: New page: '''Unreleased structure''' The entry 6dmr is ON HOLD Authors: Hughes, T.E.T., Pumroy, R.A., Moiseenkova-Bell, V.Y. Description: Lipid-bound full-length rbTRPV5 [[Category: Unreleased S...

2018-06-14T05:44:03Z

New page: '''Unreleased structure''' The entry 6dmr is ON HOLD Authors: Hughes, T.E.T., Pumroy, R.A., Moiseenkova-Bell, V.Y. Description: Lipid-bound full-length rbTRPV5 [[Category: Unreleased S...

New page

'''Unreleased structure'''

The entry 6dmr is ON HOLD

Authors: Hughes, T.E.T., Pumroy, R.A., Moiseenkova-Bell, V.Y.

Description: Lipid-bound full-length rbTRPV5
[[Category: Unreleased Structures]]
[[Category: Hughes, T.E.T]]
[[Category: Pumroy, R.A]]
[[Category: Moiseenkova-Bell, V.Y]]