5y5y - Revision history

OCA at 22:41, 10 April 2020

OCA — Fri, 10 Apr 2020 22:41:09 GMT

←Older revision		Revision as of 22:41, 10 April 2020
Line 3:		Line 3:
	<SX load='5y5y' size='340' side='right' viewer='molstar' caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>		<SX load='5y5y' size='340' side='right' viewer='molstar' caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </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=5y5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y5y OCA], [http://pdbe.org/5y5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y5y RCSB], [http://www.ebi.ac.uk/pdbsum/5y5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y5y 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=5y5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y5y OCA], [http://pdbe.org/5y5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y5y RCSB], [http://www.ebi.ac.uk/pdbsum/5y5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y5y ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 20:13, 6 March 2020

OCA — Fri, 06 Mar 2020 20:13:03 GMT

←Older revision		Revision as of 20:13, 6 March 2020
Line 1:		Line 1:

	==V/A-type ATPase/synthase from Thermus thermophilus, peripheral domain, rotational state 1==		==V/A-type ATPase/synthase from Thermus thermophilus, peripheral domain, rotational state 1==
-	<~~StructureSection~~ load='5y5y' size='340' side='right'caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>	+	<SX load='5y5y' size='340' side='right' viewer='molstar' caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>		<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>
Line 25:		Line 25:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Thermus thermophilus hb8]]		[[Category: Thermus thermophilus hb8]]

OCA at 07:28, 6 November 2019

OCA — Wed, 06 Nov 2019 07:28:36 GMT

←Older revision		Revision as of 07:28, 6 November 2019
Line 1:		Line 1:

	==V/A-type ATPase/synthase from Thermus thermophilus, peripheral domain, rotational state 1==		==V/A-type ATPase/synthase from Thermus thermophilus, peripheral domain, rotational state 1==
-	<StructureSection load='5y5y' size='340' side='right' caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>	+	<StructureSection load='5y5y' size='340' side='right'caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>		<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5y5y" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5y5y" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[ATPase 3D structures\|ATPase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Thermus thermophilus hb8]]		[[Category: Thermus thermophilus hb8]]
	[[Category: Kishikawa, J]]		[[Category: Kishikawa, J]]

OCA at 18:27, 24 January 2018

OCA — Wed, 24 Jan 2018 18:27:34 GMT

←Older revision		Revision as of 18:27, 24 January 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5y5y is ~~ON HOLD until Paper~~ Publication	+	==V/A-type ATPase/synthase from Thermus thermophilus, peripheral domain, rotational state 1==
		+	<StructureSection load='5y5y' size='340' side='right' caption='[[5y5y]], [[Resolution\|resolution]] 4.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5y5y]] is a 13 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y5Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y5Y FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </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=5y5y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y5y OCA], [http://pdbe.org/5y5y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y5y RCSB], [http://www.ebi.ac.uk/pdbsum/5y5y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y5y ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VATE_THET8 VATE_THET8]] Produces ATP from ADP in the presence of a proton gradient across the membrane. [[http://www.uniprot.org/uniprot/VATF_THET8 VATF_THET8]] Produces ATP from ADP in the presence of a proton gradient across the membrane. [[http://www.uniprot.org/uniprot/VATA_THET8 VATA_THET8]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit. [[http://www.uniprot.org/uniprot/VATD_THET8 VATD_THET8]] Produces ATP from ADP in the presence of a proton gradient across the membrane. [[http://www.uniprot.org/uniprot/VATC_THET8 VATC_THET8]] Produces ATP from ADP in the presence of a proton gradient across the membrane. [[http://www.uniprot.org/uniprot/VATB_THET8 VATB_THET8]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Proton translocating rotary ATPases couple ATP hydrolysis/synthesis, which occurs in the soluble domain, with proton flow through the membrane domain via a rotation of the common central rotor complex against the surrounding peripheral stator apparatus. Here, we present a large data set of single particle cryo-electron micrograph images of the V/A type H(+)-rotary ATPase from the bacterium Thermus thermophilus, enabling the identification of three rotational states based on the orientation of the rotor subunit. Using masked refinement and classification with signal subtractions, we obtain homogeneous reconstructions for the whole complexes and soluble V1 domains. These reconstructions are of higher resolution than any EM map of intact rotary ATPase reported previously, providing a detailed molecular basis for how the rotary ATPase maintains structural integrity of the peripheral stator apparatus, and confirming the existence of a clear proton translocation path from both sides of the membrane.

-	~~Authors~~:	+	Cryo EM structure of intact rotary H(+)-ATPase/synthase from Thermus thermophilus.,Nakanishi A, Kishikawa JI, Tamakoshi M, Mitsuoka K, Yokoyama K Nat Commun. 2018 Jan 8;9(1):89. doi: 10.1038/s41467-017-02553-6. PMID:29311594<ref>PMID:29311594</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5y5y" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Thermus thermophilus hb8]]
		+	[[Category: Kishikawa, J]]
		+	[[Category: Mitsuoka, K]]
		+	[[Category: Nakanishi, A]]
		+	[[Category: Tamakoshi, M]]
		+	[[Category: Yokoyama, K]]
		+	[[Category: Atp synthase]]
		+	[[Category: Bioenergetic]]
		+	[[Category: Motor protein]]
		+	[[Category: Proton pump]]
		+	[[Category: V-atpase]]

OCA at 04:42, 1 November 2017

OCA — Wed, 01 Nov 2017 04:42:43 GMT

←Older revision		Revision as of 04:42, 1 November 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5y5y is ON HOLD	+	The entry 5y5y is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5y5y" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 16:10:44 GMT

Protected "5y5y" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:10, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5y5y is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 16:10:43 GMT

New page: '''Unreleased structure''' The entry 5y5y is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5y5y is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]