5aw9 - Revision history

OCA at 15:50, 8 November 2023

2023-11-08T15:50:05Z

←Older revision		Revision as of 15:50, 8 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.8Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [https://pdbe.org/5aw9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [https://www.ebi.ac.uk/pdbsum/5aw9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5aw9 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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [https://pdbe.org/5aw9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [https://www.ebi.ac.uk/pdbsum/5aw9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5aw9 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:27, 31 May 2023

2023-05-31T06:27:51Z

←Older revision		Revision as of 06:27, 31 May 2023
Line 3:		Line 3:
	<StructureSection load='5aw9' size='340' side='right'caption='[[5aw9]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5aw9' size='340' side='right'caption='[[5aw9]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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" id="ligandDat"><scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5avq\|5avq]], [[5avr\|5avr]], [[5avs\|5avs]], [[5avt\|5avt]], [[5avu\|5avu]], [[5avv\|5avv]], [[5avw\|5avw]], [[5avx\|5avx]], [[5avy\|5avy]], [[5avz\|5avz]], [[5aw0\|5aw0]], [[5aw1\|5aw1]], [[5aw2\|5aw2]], [[5aw3\|5aw3]], [[5aw4\|5aw4]], [[5aw5\|5aw5]], [[5aw6\|5aw6]], [[5aw7\|5aw7]], [[5aw8\|5aw8]]</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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [https://pdbe.org/5aw9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [https://www.ebi.ac.uk/pdbsum/5aw9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5aw9 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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [~~http~~://pdbe.org/5aw9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5aw9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5aw9 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/C4IX13_SQUAC C4IX13_SQUAC]] This is the non-catalytic component of the active enzyme, which catalyzes the hydrolysis of ATP coupled with the exchange of Na(+) and K(+) ions across the plasma membrane.[RuleBase:RU004369]	+	[https://www.uniprot.org/uniprot/Q4H132_SQUAC Q4H132_SQUAC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 27:
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Squalus acanthias]]		[[Category: Squalus acanthias]]
-	[[Category: Cornelius, F]]	+	[[Category: Cornelius F]]
-	[[Category: Hirata, A]]	+	[[Category: Hirata A]]
-	[[Category: Ogawa, H]]	+	[[Category: Ogawa H]]
-	[[Category: Toyoshima, C]]	+	[[Category: Toyoshima C]]
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Atpase]]~~	+
-	~~[[Category: Haloacid dehydrogenease superfamily]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Hydrolase-transport protein complex]]~~	+
-	~~[[Category: Ion pump]]~~	+
-	~~[[Category: Ion transport]]~~	+
-	~~[[Category: K+ binding]]~~	+
-	~~[[Category: Kinetic]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Phosphate analogue]]~~	+
-	~~[[Category: Phosphoprotein~~]]	+

OCA at 07:11, 3 July 2019

2019-07-03T07:11:58Z

←Older revision		Revision as of 07:11, 3 July 2019
Line 1:		Line 1:
		+
	==Kinetics by X-ray crystallography: native E2.MgF42-.2K+ crystal for Rb+ bound crystals==		==Kinetics by X-ray crystallography: native E2.MgF42-.2K+ crystal for Rb+ bound crystals==
-	<StructureSection load='5aw9' size='340' side='right' caption='[[5aw9]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='5aw9' size='340' side='right'caption='[[5aw9]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5avq\|5avq]], [[5avr\|5avr]], [[5avs\|5avs]], [[5avt\|5avt]], [[5avu\|5avu]], [[5avv\|5avv]], [[5avw\|5avw]], [[5avx\|5avx]], [[5avy\|5avy]], [[5avz\|5avz]], [[5aw0\|5aw0]], [[5aw1\|5aw1]], [[5aw2\|5aw2]], [[5aw3\|5aw3]], [[5aw4\|5aw4]], [[5aw5\|5aw5]], [[5aw6\|5aw6]], [[5aw7\|5aw7]], [[5aw8\|5aw8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5avq\|5avq]], [[5avr\|5avr]], [[5avs\|5avs]], [[5avt\|5avt]], [[5avu\|5avu]], [[5avv\|5avv]], [[5avw\|5avw]], [[5avx\|5avx]], [[5avy\|5avy]], [[5avz\|5avz]], [[5aw0\|5aw0]], [[5aw1\|5aw1]], [[5aw2\|5aw2]], [[5aw3\|5aw3]], [[5aw4\|5aw4]], [[5aw5\|5aw5]], [[5aw6\|5aw6]], [[5aw7\|5aw7]], [[5aw8\|5aw8]]</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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [http://www.ebi.ac.uk/pdbsum/5aw9 PDBsum]</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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [http://pdbe.org/5aw9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [http://www.ebi.ac.uk/pdbsum/5aw9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5aw9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 5aw9" 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: Squalus acanthias]]		[[Category: Squalus acanthias]]
	[[Category: Cornelius, F]]		[[Category: Cornelius, F]]

OCA at 12:22, 2 September 2015

2015-09-02T12:22:53Z

←Older revision		Revision as of 12:22, 2 September 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Kinetics by X-ray crystallography: native E2.MgF42-.2K+ crystal for Rb+ bound crystals==
		+	<StructureSection load='5aw9' size='340' side='right' caption='[[5aw9]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5aw9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Squalus_acanthias Squalus acanthias]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AW9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AW9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CLR:CHOLESTEROL'>CLR</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MF4:TETRAFLUOROMAGNESATE(2-)'>MF4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5avq\|5avq]], [[5avr\|5avr]], [[5avs\|5avs]], [[5avt\|5avt]], [[5avu\|5avu]], [[5avv\|5avv]], [[5avw\|5avw]], [[5avx\|5avx]], [[5avy\|5avy]], [[5avz\|5avz]], [[5aw0\|5aw0]], [[5aw1\|5aw1]], [[5aw2\|5aw2]], [[5aw3\|5aw3]], [[5aw4\|5aw4]], [[5aw5\|5aw5]], [[5aw6\|5aw6]], [[5aw7\|5aw7]], [[5aw8\|5aw8]]</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=5aw9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aw9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=5aw9 RCSB], [http://www.ebi.ac.uk/pdbsum/5aw9 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/C4IX13_SQUAC C4IX13_SQUAC]] This is the non-catalytic component of the active enzyme, which catalyzes the hydrolysis of ATP coupled with the exchange of Na(+) and K(+) ions across the plasma membrane.[RuleBase:RU004369]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Na(+),K(+)-ATPase transfers three Na(+) from the cytoplasm into the extracellular medium and two K(+) in the opposite direction per ATP hydrolysed. The binding and release of Na(+) and K(+) are all thought to occur sequentially. Here we demonstrate by X-ray crystallography of the ATPase in E2.MgF4(2-).2K(+), a state analogous to E2.Pi.2K(+), combined with isotopic measurements, that the substitution of the two K(+) with congeners in the extracellular medium indeed occurs at different rates, substantially faster at site II. An analysis of thermal movements of protein atoms in the crystal shows that the M3-M4E helix pair opens and closes the ion pathway leading to the extracellular medium, allowing K(+) at site II to be substituted first. Taken together, these results indicate that site I K(+) is the first cation to bind to the empty cation-binding sites after releasing three Na(+).

-	~~The entry 5aw9 is ON HOLD until Paper Publication~~	+	Sequential substitution of K(+) bound to Na(+),K(+)-ATPase visualized by X-ray crystallography.,Ogawa H, Cornelius F, Hirata A, Toyoshima C Nat Commun. 2015 Aug 10;6:8004. doi: 10.1038/ncomms9004. PMID:26258479<ref>PMID:26258479</ref>

-	~~Authors: Ogawa~~, H.~~, Cornelius, F~~.~~, Hirata, A., Toyoshima, C~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Kinetics by X-ray crystallography: native E2.MgF42-.2K+ crystal for Rb+ bound crystals~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Squalus acanthias]]
		+	[[Category: Cornelius, F]]
	[[Category: Hirata, A]]		[[Category: Hirata, A]]
		+	[[Category: Ogawa, H]]
	[[Category: Toyoshima, C]]		[[Category: Toyoshima, C]]
-	[[Category: ~~Cornelius, F~~]]	+	[[Category: Atp-binding]]
-	[[Category: ~~Ogawa, H~~]]	+	[[Category: Atpase]]
		+	[[Category: Haloacid dehydrogenease superfamily]]
		+	[[Category: Hydrolase]]
		+	[[Category: Hydrolase-transport protein complex]]
		+	[[Category: Ion pump]]
		+	[[Category: Ion transport]]
		+	[[Category: K+ binding]]
		+	[[Category: Kinetic]]
		+	[[Category: Membrane protein]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Phosphate analogue]]
		+	[[Category: Phosphoprotein]]

OCA at 17:44, 5 August 2015

2015-08-05T17:44:13Z

←Older revision		Revision as of 17:44, 5 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5aw9 is ON HOLD	+	The entry 5aw9 is ON HOLD until Paper Publication

	Authors: Ogawa, H., Cornelius, F., Hirata, A., Toyoshima, C.		Authors: Ogawa, H., Cornelius, F., Hirata, A., Toyoshima, C.

OCA: Protected "5aw9" [edit=sysop:move=sysop]

2015-07-08T13:15:25Z

Protected "5aw9" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:15, 8 July 2015

OCA: New page: '''Unreleased structure''' The entry 5aw9 is ON HOLD Authors: Ogawa, H., Cornelius, F., Hirata, A., Toyoshima, C. Description: Kinetics by X-ray crystallography: native E2.MgF42-.2K+ c...

2015-07-08T13:15:24Z

New page: '''Unreleased structure''' The entry 5aw9 is ON HOLD Authors: Ogawa, H., Cornelius, F., Hirata, A., Toyoshima, C. Description: Kinetics by X-ray crystallography: native E2.MgF42-.2K+ c...

New page

'''Unreleased structure'''

The entry 5aw9 is ON HOLD

Authors: Ogawa, H., Cornelius, F., Hirata, A., Toyoshima, C.

Description: Kinetics by X-ray crystallography: native E2.MgF42-.2K+ crystal for Rb+ bound crystals
[[Category: Unreleased Structures]]
[[Category: Hirata, A]]
[[Category: Toyoshima, C]]
[[Category: Cornelius, F]]
[[Category: Ogawa, H]]