6a6m - Revision history

OCA at 10:30, 27 March 2024

OCA — Wed, 27 Mar 2024 10:30:59 GMT

←Older revision		Revision as of 10:30, 27 March 2024
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	==Crystal structure of an outward-open nucleotide-bound state of the eukaryotic ABC multidrug transporter CmABCB1==		==Crystal structure of an outward-open nucleotide-bound state of the eukaryotic ABC multidrug transporter CmABCB1==
-	<StructureSection load='6a6m' size='340' side='right' caption='[[6a6m]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='6a6m' size='340' side='right'caption='[[6a6m]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6a6m]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A6M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6A6M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6a6m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Cyanidioschyzon_merolae_strain_10D Cyanidioschyzon merolae strain 10D]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A6M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6A6M FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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]] 1.9Å</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=6a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a6m OCA], [~~http~~://pdbe.org/6a6m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6a6m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6a6m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6a6m ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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=6a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a6m OCA], [https://pdbe.org/6a6m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6a6m RCSB], [https://www.ebi.ac.uk/pdbsum/6a6m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6a6m ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/M1VAN7_CYAM1 M1VAN7_CYAM1]
-	P-glycoprotein extrudes a large variety of xenobiotics from the cell, thereby protecting tissues from their toxic effects. The machinery underlying unidirectional multidrug pumping remains unknown, largely due to the lack of high-resolution structural information regarding the alternate conformational states of the molecule. Here we report a pair of structures of homodimeric P-glycoprotein: an outward-facing conformational state with bound nucleotide and an inward-facing apo state, at resolutions of 1.9 A and 3.0 A, respectively. Features that can be clearly visualized at this high resolution include ATP binding with octahedral coordination of Mg(2+); an inner chamber that significantly changes in volume with the aid of tight connections among transmembrane helices (TM) 1, 3, and 6; a glutamate-arginine interaction that stabilizes the outward-facing conformation; and extensive interactions between TM1 and TM3, a property that distinguishes multidrug transporters from floppases. These structural elements are proposed to participate in the mechanism of the transporter.	+
-		+
-	Inward- and outward-facing X-ray crystal structures of homodimeric P-glycoprotein CmABCB1.,Kodan A, Yamaguchi T, Nakatsu T, Matsuoka K, Kimura Y, Ueda K, Kato H Nat Commun. 2019 Jan 8;10(1):88. doi: 10.1038/~~s41467-018-08007-x. PMID:30622258<ref>PMID:30622258<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6a6m" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Kato, H~~]]	+	[[Category: Cyanidioschyzon merolae strain 10D]]
-	[[Category: ~~Kodan, A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Nakatsu, T~~]]	+	[[Category: Kato H]]
-	[[Category: ~~Transport protein~~]]	+	[[Category: Kodan A]]
-	[[Category: ~~Transport protein alpha-helical~~]]	+	[[Category: Nakatsu T]]

OCA at 06:36, 21 February 2019

OCA — Thu, 21 Feb 2019 06:36:28 GMT

←Older revision		Revision as of 06:36, 21 February 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6a6m is ~~ON HOLD~~	+	==Crystal structure of an outward-open nucleotide-bound state of the eukaryotic ABC multidrug transporter CmABCB1==
		+	<StructureSection load='6a6m' size='340' side='right' caption='[[6a6m]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6a6m]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A6M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6A6M FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</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=6a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a6m OCA], [http://pdbe.org/6a6m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6a6m RCSB], [http://www.ebi.ac.uk/pdbsum/6a6m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6a6m ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	P-glycoprotein extrudes a large variety of xenobiotics from the cell, thereby protecting tissues from their toxic effects. The machinery underlying unidirectional multidrug pumping remains unknown, largely due to the lack of high-resolution structural information regarding the alternate conformational states of the molecule. Here we report a pair of structures of homodimeric P-glycoprotein: an outward-facing conformational state with bound nucleotide and an inward-facing apo state, at resolutions of 1.9 A and 3.0 A, respectively. Features that can be clearly visualized at this high resolution include ATP binding with octahedral coordination of Mg(2+); an inner chamber that significantly changes in volume with the aid of tight connections among transmembrane helices (TM) 1, 3, and 6; a glutamate-arginine interaction that stabilizes the outward-facing conformation; and extensive interactions between TM1 and TM3, a property that distinguishes multidrug transporters from floppases. These structural elements are proposed to participate in the mechanism of the transporter.

-	~~Authors: Kato, H~~., ~~Nakatsu~~, T., ~~Kodan~~, A.	+	Inward- and outward-facing X-ray crystal structures of homodimeric P-glycoprotein CmABCB1.,Kodan A, Yamaguchi T, Nakatsu T, Matsuoka K, Kimura Y, Ueda K, Kato H Nat Commun. 2019 Jan 8;10(1):88. doi: 10.1038/s41467-018-08007-x. PMID:30622258<ref>PMID:30622258</ref>

-	~~Description: Crystal structure of an outward-open nucleotide-bound state~~ of the ~~eukaryotic ABC multidrug transporter CmABCB1~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 6a6m" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Kato, H]]		[[Category: Kato, H]]
-	[[Category: Nakatsu, T]]
	[[Category: Kodan, A]]		[[Category: Kodan, A]]
		+	[[Category: Nakatsu, T]]
		+	[[Category: Transport protein]]
		+	[[Category: Transport protein alpha-helical]]

OCA: Protected "6a6m" [edit=sysop:move=sysop]

OCA — Wed, 04 Jul 2018 05:34:52 GMT

Protected "6a6m" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:34, 4 July 2018

OCA: New page: '''Unreleased structure''' The entry 6a6m is ON HOLD Authors: Kato, H., Nakatsu, T., Kodan, A. Description: Crystal structure of an outward-open nucleotide-bound state of the eukaryoti...

OCA — Wed, 04 Jul 2018 05:34:51 GMT

New page: '''Unreleased structure''' The entry 6a6m is ON HOLD Authors: Kato, H., Nakatsu, T., Kodan, A. Description: Crystal structure of an outward-open nucleotide-bound state of the eukaryoti...

New page

'''Unreleased structure'''

The entry 6a6m is ON HOLD

Authors: Kato, H., Nakatsu, T., Kodan, A.

Description: Crystal structure of an outward-open nucleotide-bound state of the eukaryotic ABC multidrug transporter CmABCB1
[[Category: Unreleased Structures]]
[[Category: Kato, H]]
[[Category: Nakatsu, T]]
[[Category: Kodan, A]]