5kmh - Revision history

OCA at 10:03, 27 September 2023

OCA — Wed, 27 Sep 2023 10:03:51 GMT

←Older revision		Revision as of 10:03, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5kmh' size='340' side='right'caption='[[5kmh]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='5kmh' size='340' side='right'caption='[[5kmh]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arcb4 Arcb4~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KMH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aliarcobacter_butzleri_RM4018 Aliarcobacter butzleri RM4018]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KMH FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-BROMOPHENYL)-5-[2-(3,4-DIMETHOXYPHENYL)ETHYL-METHYL-AMINO]-2-PROPAN-2-YL-PENTANENITRILE'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene>~~</td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 3.2Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Abu_1752 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=367737 ARCB4])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-BROMOPHENYL)-5-[2-(3,4-DIMETHOXYPHENYL)ETHYL-METHYL-AMINO]-2-PROPAN-2-YL-PENTANENITRILE'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene></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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [~~http~~://pdbe.org/5kmh PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh 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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [https://pdbe.org/5kmh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [https://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8EVM5_ALIB4 A8EVM5_ALIB4]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arcb4~~]]	+	[[Category: Aliarcobacter butzleri RM4018]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Catterall~~, W A~~]]	+	[[Category: Catterall WA]]
-	[[Category: EL-Din~~, T M.Gamal~~]]	+	[[Category: Gamal EL-Din TM]]
-	[[Category: Pryde~~, D C~~]]	+	[[Category: Pryde DC]]
-	[[Category: Scheuer, T]]	+	[[Category: Scheuer T]]
-	[[Category: Swanson~~, T M~~]]	+	[[Category: Swanson TM]]
-	[[Category: Tang, L]]	+	[[Category: Tang L]]
-	[[Category: Zheng, N]]	+	[[Category: Zheng N]]
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Voltage-gated calcium channel~~]]	+

OCA at 09:14, 4 December 2019

OCA — Wed, 04 Dec 2019 09:14:18 GMT

←Older revision		Revision as of 09:14, 4 December 2019
Line 1:		Line 1:

	==Structure of CavAb in complex with Br-verapamil==		==Structure of CavAb in complex with Br-verapamil==
-	<StructureSection load='5kmh' size='340' side='right' caption='[[5kmh]], [[Resolution\|resolution]] 3.20Å' scene=''>	+	<StructureSection load='5kmh' size='340' side='right'caption='[[5kmh]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KMH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcb4 Arcb4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KMH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-BROMOPHENYL)-5-[2-(3,4-DIMETHOXYPHENYL)ETHYL-METHYL-AMINO]-2-PROPAN-2-YL-PENTANENITRILE'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-BROMOPHENYL)-5-[2-(3,4-DIMETHOXYPHENYL)ETHYL-METHYL-AMINO]-2-PROPAN-2-YL-PENTANENITRILE'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Abu_1752 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=367737 ARCB4])</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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [http://pdbe.org/5kmh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [http://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh 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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [http://pdbe.org/5kmh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [http://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arcb4]]
		+	[[Category: Large Structures]]
	[[Category: Catterall, W A]]		[[Category: Catterall, W A]]
	[[Category: EL-Din, T M.Gamal]]		[[Category: EL-Din, T M.Gamal]]

OCA at 13:58, 10 September 2016

OCA — Sat, 10 Sep 2016 13:58:08 GMT

←Older revision		Revision as of 13:58, 10 September 2016
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KMH FirstGlance]. <br>		<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KMH FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-~~bromophenyl~~)-5-[2-(3,4-~~dimethoxyphenyl~~)~~ethyl~~-~~methyl~~-~~amino~~]-2-~~propan~~-2-yl-~~pentanenitrile~~'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-BROMOPHENYL)-5-[2-(3,4-DIMETHOXYPHENYL)ETHYL-METHYL-AMINO]-2-PROPAN-2-YL-PENTANENITRILE'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene></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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [http://pdbe.org/5kmh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [http://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh 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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [http://pdbe.org/5kmh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [http://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh ProSAT]</span></td></tr>
	</table>		</table>

OCA at 05:12, 9 September 2016

OCA — Fri, 09 Sep 2016 05:12:03 GMT

←Older revision		Revision as of 05:12, 9 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5kmh is ~~ON HOLD~~	+	==Structure of CavAb in complex with Br-verapamil==
		+	<StructureSection load='5kmh' size='340' side='right' caption='[[5kmh]], [[Resolution\|resolution]] 3.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kmh]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KMH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KMH FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6U8:(2~{R})-2-(2-bromophenyl)-5-[2-(3,4-dimethoxyphenyl)ethyl-methyl-amino]-2-propan-2-yl-pentanenitrile'>6U8</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MC3:1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE'>MC3</scene>, <scene name='pdbligand=PX6:1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE'>PX6</scene></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=5kmh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kmh OCA], [http://pdbe.org/5kmh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kmh RCSB], [http://www.ebi.ac.uk/pdbsum/5kmh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kmh ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ca2+ antagonist drugs are widely used in therapy of cardiovascular disorders. Three chemical classes of drugs bind to three separate, but allosterically interacting, receptor sites on CaV1.2 channels, the most prominent voltage-gated Ca2+ (CaV) channel type in myocytes in cardiac and vascular smooth muscle. The 1,4-dihydropyridines are used primarily for treatment of hypertension and angina pectoris and are thought to act as allosteric modulators of voltage-dependent Ca2+ channel activation, whereas phenylalkylamines and benzothiazepines are used primarily for treatment of cardiac arrhythmias and are thought to physically block the pore. The structural basis for the different binding, action, and therapeutic uses of these drugs remains unknown. Here we present crystallographic and functional analyses of drug binding to the bacterial homotetrameric model CaV channel CaVAb, which is inhibited by dihydropyridines and phenylalkylamines with nanomolar affinity in a state-dependent manner. The binding site for amlodipine and other dihydropyridines is located on the external, lipid-facing surface of the pore module, positioned at the interface of two subunits. Dihydropyridine binding allosterically induces an asymmetric conformation of the selectivity filter, in which partially dehydrated Ca2+ interacts directly with one subunit and blocks the pore. In contrast, the phenylalkylamine Br-verapamil binds in the central cavity of the pore on the intracellular side of the selectivity filter, physically blocking the ion-conducting pathway. Structure-based mutations of key amino-acid residues confirm drug binding at both sites. Our results define the structural basis for binding of dihydropyridines and phenylalkylamines at their distinct receptor sites on CaV channels and offer key insights into their fundamental mechanisms of action and differential therapeutic uses in cardiovascular diseases.

-	~~Authors~~:	+	Structural basis for inhibition of a voltage-gated Ca2+ channel by Ca2+ antagonist drugs.,Tang L, El-Din TM, Swanson TM, Pryde DC, Scheuer T, Zheng N, Catterall WA Nature. 2016 Aug 24;537(7618):117-121. doi: 10.1038/nature19102. PMID:27556947<ref>PMID:27556947</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5kmh" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Catterall, W A]]
		+	[[Category: EL-Din, T M.Gamal]]
		+	[[Category: Pryde, D C]]
		+	[[Category: Scheuer, T]]
		+	[[Category: Swanson, T M]]
		+	[[Category: Tang, L]]
		+	[[Category: Zheng, N]]
		+	[[Category: Transport protein]]
		+	[[Category: Voltage-gated calcium channel]]

OCA: Protected "5kmh" [edit=sysop:move=sysop]

OCA — Wed, 13 Jul 2016 00:34:01 GMT

Protected "5kmh" [edit=sysop:move=sysop]

←Older revision

Revision as of 00:34, 13 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kmh is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 13 Jul 2016 00:34:00 GMT

New page: '''Unreleased structure''' The entry 5kmh is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5kmh is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]