6b2b - Revision history

OCA at 14:31, 4 October 2023

2023-10-04T14:31:01Z

←Older revision		Revision as of 14:31, 4 October 2023
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	<StructureSection load='6b2b' size='340' side='right'caption='[[6b2b]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='6b2b' size='340' side='right'caption='[[6b2b]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6b2b]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~] and [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B2B OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6B2B FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6b2b]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B2B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6B2B FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.6Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">crcB, A4T40_27000, AC789_145pl00540, AKG99_27195, BET08_05210, BK292_28205, BK334_22235, BK373_23795, BUE82_27975, ECONIH1_26550, ECS286_0026, MJ49_27125, pCTXM15_EC8_00123, pO103_22 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=6b2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b2b OCA], [~~http~~://pdbe.org/6b2b PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6b2b RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6b2b PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6b2b 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=6b2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b2b OCA], [https://pdbe.org/6b2b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6b2b RCSB], [https://www.ebi.ac.uk/pdbsum/6b2b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6b2b ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/Q6J5N4_ECOLX Q6J5N4_ECOLX]] Important for reducing fluoride concentration in the cell, thus reducing its toxicity.[HAMAP-Rule:MF_00454][SAAS:SAAS00096000]	+	[https://www.uniprot.org/uniprot/Q6J5N4_ECOLX Q6J5N4_ECOLX] Important for reducing fluoride concentration in the cell, thus reducing its toxicity.[HAMAP-Rule:MF_00454][SAAS:SAAS00096000]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Last~~, N B~~]]	+	[[Category: Last NB]]
-	[[Category: Miller, C]]	+	[[Category: Miller C]]
-	[[Category: Pham~~, M C~~]]	+	[[Category: Pham MC]]
-	[[Category: Sun, S]]	+	[[Category: Sun S]]
-	~~[[Category: Alpha helix]]~~	+
-	~~[[Category: Ion channel]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 17:09, 20 November 2019

2019-11-20T17:09:03Z

←Older revision		Revision as of 17:09, 20 November 2019
Line 1:		Line 1:

	==Crystal structure of fluoride channel Fluc Ec2 F83M Mutant==		==Crystal structure of fluoride channel Fluc Ec2 F83M Mutant==
-	<StructureSection load='6b2b' size='340' side='right' caption='[[6b2b]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='6b2b' size='340' side='right'caption='[[6b2b]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6b2b]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B2B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B2B FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6b2b]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B2B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B2B FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">crcB, A4T40_27000, AC789_145pl00540, AKG99_27195, BET08_05210, BK292_28205, BK334_22235, BK373_23795, BUE82_27975, ECONIH1_26550, ECS286_0026, MJ49_27125, pCTXM15_EC8_00123, pO103_22 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=6b2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b2b OCA], [http://pdbe.org/6b2b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b2b RCSB], [http://www.ebi.ac.uk/pdbsum/6b2b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b2b 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=6b2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b2b OCA], [http://pdbe.org/6b2b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b2b RCSB], [http://www.ebi.ac.uk/pdbsum/6b2b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b2b ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Last, N B]]		[[Category: Last, N B]]
	[[Category: Miller, C]]		[[Category: Miller, C]]

OCA at 07:01, 11 October 2017

2017-10-11T07:01:51Z

←Older revision		Revision as of 07:01, 11 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6b2b is ~~ON HOLD~~	+	==Crystal structure of fluoride channel Fluc Ec2 F83M Mutant==
		+	<StructureSection load='6b2b' size='340' side='right' caption='[[6b2b]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6b2b]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B2B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B2B FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DMU:DECYL-BETA-D-MALTOPYRANOSIDE'>DMU</scene>, <scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=6b2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b2b OCA], [http://pdbe.org/6b2b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b2b RCSB], [http://www.ebi.ac.uk/pdbsum/6b2b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b2b ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/Q6J5N4_ECOLX Q6J5N4_ECOLX]] Important for reducing fluoride concentration in the cell, thus reducing its toxicity.[HAMAP-Rule:MF_00454][SAAS:SAAS00096000]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Fluoride ion channels of the Fluc family combat toxicity arising from accumulation of environmental F-. Although crystal structures are known, the densely packed pore region has precluded delineation of the ion pathway. Here we chart out the Fluc pore and characterize its chemical requirements for transport. A ladder of H-bond donating residues creates a 'polar track' demarking the ion-conduction pathway. Surprisingly, while track polarity is well conserved, polarity is nonetheless functionally dispensable at several positions. A threonine at one end of the pore engages in vital interactions through its beta-branched methyl group. Two critical central phenylalanines that directly coordinate F- through a quadrupolar-ion interaction cannot be functionally substituted by aromatic, non-polar, or polar sidechains. The only functional replacement is methionine, which coordinates F- through its partially positive gamma-methylene in mimicry of phenylalanine's quadrupolar interaction. These results demonstrate the unusual chemical requirements for selectively transporting the strongly H-bonding F- anion.

-	~~Authors~~:	+	Molecular determinants of permeation in a fluoride-specific ion channel.,Last NB, Sun S, Pham MC, Miller C Elife. 2017 Sep 27;6. pii: e31259. doi: 10.7554/eLife.31259. PMID:28952925<ref>PMID:28952925</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6b2b" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Last, N B]]
		+	[[Category: Miller, C]]
		+	[[Category: Pham, M C]]
		+	[[Category: Sun, S]]
		+	[[Category: Alpha helix]]
		+	[[Category: Ion channel]]
		+	[[Category: Membrane protein]]
		+	[[Category: Transport protein]]

OCA: Protected "6b2b" [edit=sysop:move=sysop]

2017-09-27T17:05:24Z

Protected "6b2b" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:05, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 6b2b is ON HOLD Authors: Description: Category: Unreleased Structures

2017-09-27T17:05:22Z

New page: '''Unreleased structure''' The entry 6b2b is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6b2b is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]