8a35 - Revision history

OCA at 08:08, 7 February 2024

2024-02-07T08:08:32Z

← Older revision		Revision as of 08:08, 7 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8a35]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus_ATCC_14579 Bacillus cereus ATCC 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8A35 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A35 FirstGlance]. <br>		<table><tr><td colspan='2'>[[8a35]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus_ATCC_14579 Bacillus cereus ATCC 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8A35 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A35 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=RB:RUBIDIUM+ION'>RB</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]] 2.05Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=RB:RUBIDIUM+ION'>RB</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=8a35 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a35 OCA], [https://pdbe.org/8a35 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a35 RCSB], [https://www.ebi.ac.uk/pdbsum/8a35 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a35 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=8a35 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a35 OCA], [https://pdbe.org/8a35 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a35 RCSB], [https://www.ebi.ac.uk/pdbsum/8a35 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a35 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q81HW2_BACCR Q81HW2_BACCR]		[https://www.uniprot.org/uniprot/Q81HW2_BACCR Q81HW2_BACCR]
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Ionotropic glutamate receptors are ligand-gated cation channels that play essential roles in the excitatory synaptic transmission throughout the central nervous system. A number of open-pore structures of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic-acid (AMPA)-type glutamate receptors became recently available by cryo-electron microscopy (cryo-EM). These structures provide valuable insights into the conformation of the selectivity filter (SF), the part of the ion channel that determines the ion selectivity. Nonetheless, due to the moderate resolution of the cryo-EM structures, detailed information such as ion occupancy of monovalent and divalent cations as well as exact displacement of the side-chains in the SF is still missing. Here, in an attempt to obtain high-resolution information about glutamate receptor SFs, we incorporated partial SF sequences of the AMPA and kainate receptors into the bacterial tetrameric cation channel NaK, which served as a structural scaffold. We determined a series of X-ray structures of NaK-CDI, NaK-SDI and NaK-SELM mutants at 1.42-2.10 A resolution, showing distinct ion occupation of different monovalent cations. Molecular dynamics (MD) simulations of NaK-CDI indicated the channel to be conductive to monovalent cations, which agrees well with our electrophysiology recordings. Moreover, unique structural asymmetry of the SF was revealed by the X-ray structures and MD simulations, implying its importance in ion non-selectivity of tetrameric cation channels.

	Asymmetry and ion selectivity properties of bacterial channel NaK mutants derived from ionotropic glutamate receptors.,Minniberger S, Abdolvand S, Braunbeck S, Sun H, Plested AJR J Mol Biol. 2023 Jan 19:167970. doi: 10.1016/j.jmb.2023.167970. PMID:36682679<ref>PMID:36682679</ref>		==See Also==
			*[[Potassium channel 3D structures\|Potassium channel 3D structures]]
	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 8a35" style~~=~~"background-color:#fffaf0;"></div>~~
	=~~= References~~ ==
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:19, 1 February 2023

2023-02-01T11:19:41Z

← Older revision		Revision as of 11:19, 1 February 2023
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry~~ 8a35 is ~~ON HOLD until Paper~~ Publication		==NaK C-DI mutant with Rb+ and Na+==
			<StructureSection load='8a35' size='340' side='right'caption='[[8a35]], [[Resolution\|resolution]] 2.05Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[8a35]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus_ATCC_14579 Bacillus cereus ATCC 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8A35 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A35 FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=RB:RUBIDIUM+ION'>RB</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=8a35 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a35 OCA], [https://pdbe.org/8a35 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a35 RCSB], [https://www.ebi.ac.uk/pdbsum/8a35 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a35 ProSAT]</span></td></tr>
			</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q81HW2_BACCR Q81HW2_BACCR]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Ionotropic glutamate receptors are ligand-gated cation channels that play essential roles in the excitatory synaptic transmission throughout the central nervous system. A number of open-pore structures of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic-acid (AMPA)-type glutamate receptors became recently available by cryo-electron microscopy (cryo-EM). These structures provide valuable insights into the conformation of the selectivity filter (SF), the part of the ion channel that determines the ion selectivity. Nonetheless, due to the moderate resolution of the cryo-EM structures, detailed information such as ion occupancy of monovalent and divalent cations as well as exact displacement of the side-chains in the SF is still missing. Here, in an attempt to obtain high-resolution information about glutamate receptor SFs, we incorporated partial SF sequences of the AMPA and kainate receptors into the bacterial tetrameric cation channel NaK, which served as a structural scaffold. We determined a series of X-ray structures of NaK-CDI, NaK-SDI and NaK-SELM mutants at 1.42-2.10 A resolution, showing distinct ion occupation of different monovalent cations. Molecular dynamics (MD) simulations of NaK-CDI indicated the channel to be conductive to monovalent cations, which agrees well with our electrophysiology recordings. Moreover, unique structural asymmetry of the SF was revealed by the X-ray structures and MD simulations, implying its importance in ion non-selectivity of tetrameric cation channels.

	~~Authors:~~ Minniberger, S., Plested~~, A~~.J.R.		Asymmetry and ion selectivity properties of bacterial channel NaK mutants derived from ionotropic glutamate receptors.,Minniberger S, Abdolvand S, Braunbeck S, Sun H, Plested AJR J Mol Biol. 2023 Jan 19:167970. doi: 10.1016/j.jmb.2023.167970. PMID:36682679<ref>PMID:36682679</ref>

	~~Description~~: ~~NaK C-DI mutant with Rb+ and Na+~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	[[Category: ~~Unreleased~~ Structures]]		</div>
	[[Category: Minniberger, S]]		<div class="pdbe-citations 8a35" style="background-color:#fffaf0;"></div>
	[[Category: Plested~~, A.J.R~~]]		== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Bacillus cereus ATCC 14579]]
			[[Category: Large Structures]]
			[[Category: Minniberger S]]
			[[Category: Plested AJR]]

OCA at 06:19, 29 June 2022

2022-06-29T06:19:34Z

← Older revision		Revision as of 06:19, 29 June 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 8a35 is ON HOLD		The entry 8a35 is ON HOLD until Paper Publication

	Authors: Minniberger, S., Plested, A.J.R.		Authors: Minniberger, S., Plested, A.J.R.

OCA: Protected "8a35" [edit=sysop:move=sysop]

2022-06-15T04:06:42Z

Protected "8a35" [edit=sysop:move=sysop]

← Older revision	Revision as of 04:06, 15 June 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 8a35 is ON HOLD Authors: Minniberger, S., Plested, A.J.R. Description: NaK C-DI mutant with Rb+ and Na+ Category: Unreleased Structures [[Categ...

2022-06-15T04:06:41Z

New page: '''Unreleased structure''' The entry 8a35 is ON HOLD Authors: Minniberger, S., Plested, A.J.R. Description: NaK C-DI mutant with Rb+ and Na+ Category: Unreleased Structures [[Categ...

New page

'''Unreleased structure'''

The entry 8a35 is ON HOLD

Authors: Minniberger, S., Plested, A.J.R.

Description: NaK C-DI mutant with Rb+ and Na+
[[Category: Unreleased Structures]]
[[Category: Minniberger, S]]
[[Category: Plested, A.J.R]]