6ndx - Revision history

OCA at 15:20, 29 November 2023

OCA — Wed, 29 Nov 2023 15:20:53 GMT

←Older revision		Revision as of 15:20, 29 November 2023
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	<StructureSection load='6ndx' size='340' side='right'caption='[[6ndx]], [[Resolution\|resolution]] 3.04Å' scene=''>		<StructureSection load='6ndx' size='340' side='right'caption='[[6ndx]], [[Resolution\|resolution]] 3.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ndx]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"spirillum_dentium"_(miller_1889)_sternberg_1892 "spirillum dentium" (miller 1889) sternberg 1892~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6NDX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ndx]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Treponema_denticola Treponema denticola]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NDX FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=DAL:D-ALANINE'>DAL</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]] 3.04Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ndw\|6ndw]]~~, [[~~6ndt~~\|~~6ndt~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DAL:D-ALANINE'>DAL</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>flgE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~158~~ "~~Spirillum dentium~~" ~~(Miller 1889) Sternberg 1892])~~</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=6ndx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndx OCA], [https://pdbe.org/6ndx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ndx RCSB], [https://www.ebi.ac.uk/pdbsum/6ndx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndx 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=6ndx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndx OCA], [~~http~~://pdbe.org/6ndx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ndx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ndx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndx ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9RQB6_TREDN Q9RQB6_TREDN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6ndx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ndx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Flagellar protein 3D structures\|Flagellar protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Crane, B R~~]]	+	[[Category: Treponema denticola]]
-	[[Category: ~~Lynch, M J~~]]	+	[[Category: Crane BR]]
-	[[Category: ~~Crosslinking]]~~	+	[[Category: Lynch MJ]]
-	~~[[Category: Dehydroalanine]]~~	+
-	~~[[Category: Flge]]~~	+
-	~~[[Category: Hook]]~~	+
-	~~[[Category: Lysinoalanine]]~~	+
-	~~[[Category: Motor protein]]~~	+
-	~~[[Category: Periodontal disease]]~~	+
-	~~[[Category: Spirochete~~]]	+

OCA at 16:00, 28 August 2019

OCA — Wed, 28 Aug 2019 16:00:01 GMT

←Older revision		Revision as of 16:00, 28 August 2019
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	<StructureSection load='6ndx' size='340' side='right'caption='[[6ndx]], [[Resolution\|resolution]] 3.04Å' scene=''>		<StructureSection load='6ndx' size='340' side='right'caption='[[6ndx]], [[Resolution\|resolution]] 3.04Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ndx]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NDX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ndx]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"spirillum_dentium"_(miller_1889)_sternberg_1892 "spirillum dentium" (miller 1889) sternberg 1892]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NDX FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DAL:D-ALANINE'>DAL</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DAL:D-ALANINE'>DAL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ndw\|6ndw]], [[6ndt\|6ndt]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ndw\|6ndw]], [[6ndt\|6ndt]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">flgE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158 "Spirillum dentium" (Miller 1889) Sternberg 1892])</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=6ndx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndx OCA], [http://pdbe.org/6ndx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ndx RCSB], [http://www.ebi.ac.uk/pdbsum/6ndx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndx 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=6ndx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndx OCA], [http://pdbe.org/6ndx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ndx RCSB], [http://www.ebi.ac.uk/pdbsum/6ndx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndx ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The flagellar hook protein FlgE from spirochaete bacteria self-catalyzes the formation of an unusual inter-subunit lysinoalanine (Lal) crosslink that is critical for cell motility. Unlike other known examples of Lal biosynthesis, conserved cysteine and lysine residues in FlgE spontaneously react to form Lal without the involvement of additional enzymes. Oligomerization of FlgE via its D0 and Dc domains drives assembly of the crosslinking site at the D1-D2 domain interface. Structures of the FlgED2 domain, dehydroalanine (DHA) intermediate and Lal crosslinked FlgE subunits reveal successive snapshots of the reaction. Cys178 flips from a buried configuration to release hydrogen sulfide (H2S/HS(-)) and produce DHA. Interface residues provide hydrogen bonds to anchor the active site, facilitate beta-elimination of Cys178 and polarize the peptide backbone to activate DHA for reaction with Lys165. Cysteine-reactive molecules accelerate DHA formation, whereas nucleophiles can intercept the DHA intermediate, thereby indicating a potential for Lal crosslink inhibitors to combat spirochaetal diseases.
		+
		+	Structure and chemistry of lysinoalanine crosslinking in the spirochaete flagella hook.,Lynch MJ, Miller M, James M, Zhang S, Zhang K, Li C, Charon NW, Crane BR Nat Chem Biol. 2019 Aug 12. pii: 10.1038/s41589-019-0341-3. doi:, 10.1038/s41589-019-0341-3. PMID:31406373<ref>PMID:31406373</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ndx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 16:39, 14 August 2019

OCA — Wed, 14 Aug 2019 16:39:43 GMT

←Older revision		Revision as of 16:39, 14 August 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6ndx is ~~ON HOLD until Paper Publication~~	+	==Lysinoalanine cross-linked FlgE dimer from Treponema denticola==
-		+	<StructureSection load='6ndx' size='340' side='right'caption='[[6ndx]], [[Resolution\|resolution]] 3.04Å' scene=''>
-	~~Authors~~: ~~Lynch~~, M.J., ~~Crane~~, B.R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ndx]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NDX FirstGlance]. <br>
-	~~Description~~: ~~Lysinoalanine cross~~-~~linked FlgE dimer from Treponema denticola~~	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DAL:D-ALANINE'>DAL</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ndw\|6ndw]], [[6ndt\|6ndt]]</td></tr>
-	[[Category: Crane, B.R]]	+	<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=6ndx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndx OCA], [http://pdbe.org/6ndx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ndx RCSB], [http://www.ebi.ac.uk/pdbsum/6ndx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndx ProSAT]</span></td></tr>
-	[[Category: Lynch, M.J]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Crane, B R]]
		+	[[Category: Lynch, M J]]
		+	[[Category: Crosslinking]]
		+	[[Category: Dehydroalanine]]
		+	[[Category: Flge]]
		+	[[Category: Hook]]
		+	[[Category: Lysinoalanine]]
		+	[[Category: Motor protein]]
		+	[[Category: Periodontal disease]]
		+	[[Category: Spirochete]]

OCA at 06:29, 30 January 2019

OCA — Wed, 30 Jan 2019 06:29:40 GMT

←Older revision		Revision as of 06:29, 30 January 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ndx is ON HOLD	+	The entry 6ndx is ON HOLD until Paper Publication

	Authors: Lynch, M.J., Crane, B.R.		Authors: Lynch, M.J., Crane, B.R.

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

OCA — Wed, 26 Dec 2018 06:47:28 GMT

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

←Older revision

Revision as of 06:47, 26 December 2018

OCA: New page: '''Unreleased structure''' The entry 6ndx is ON HOLD Authors: Lynch, M.J., Crane, B.R. Description: Lysinoalanine cross-linked FlgE dimer from Treponema denticola [[Category: Unrelease...

OCA — Wed, 26 Dec 2018 06:47:27 GMT

New page: '''Unreleased structure''' The entry 6ndx is ON HOLD Authors: Lynch, M.J., Crane, B.R. Description: Lysinoalanine cross-linked FlgE dimer from Treponema denticola [[Category: Unrelease...

New page

'''Unreleased structure'''

The entry 6ndx is ON HOLD

Authors: Lynch, M.J., Crane, B.R.

Description: Lysinoalanine cross-linked FlgE dimer from Treponema denticola
[[Category: Unreleased Structures]]
[[Category: Crane, B.R]]
[[Category: Lynch, M.J]]