6ndv - Revision history

OCA at 14:47, 13 March 2024

OCA — Wed, 13 Mar 2024 14:47:23 GMT

←Older revision		Revision as of 14:47, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='6ndv' size='340' side='right'caption='[[6ndv]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='6ndv' size='340' side='right'caption='[[6ndv]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ndv]] is a 1 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=6NDV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6NDV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ndv]] is a 1 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=6NDV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NDV FirstGlance]. <br>
-	</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>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.502Å</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=6ndv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndv OCA], [~~http~~://pdbe.org/6ndv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ndv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ndv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndv 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=6ndv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndv OCA], [https://pdbe.org/6ndv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ndv RCSB], [https://www.ebi.ac.uk/pdbsum/6ndv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndv ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/Q9RQB6_TREDN Q9RQB6_TREDN]
-	~~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>	+	==See Also==
-		+	*[[Flagellar protein 3D structures\|Flagellar protein 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6ndv" style="background-color:#fffaf0;"></div>~~	+
-	== ~~References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</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 15:59, 28 August 2019

OCA — Wed, 28 Aug 2019 15:59:51 GMT

←Older revision		Revision as of 15:59, 28 August 2019
Line 3:		Line 3:
	<StructureSection load='6ndv' size='340' side='right'caption='[[6ndv]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='6ndv' size='340' side='right'caption='[[6ndv]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ndv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NDV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ndv]] is a 1 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=6NDV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NDV FirstGlance]. <br>
-	</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=6ndv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndv OCA], [http://pdbe.org/6ndv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ndv RCSB], [http://www.ebi.ac.uk/pdbsum/6ndv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndv ProSAT]</span></td></tr>	+	</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=6ndv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndv OCA], [http://pdbe.org/6ndv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ndv RCSB], [http://www.ebi.ac.uk/pdbsum/6ndv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndv 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 6ndv" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 05:54, 21 August 2019

OCA — Wed, 21 Aug 2019 05:54:59 GMT

←Older revision		Revision as of 05:54, 21 August 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ndv ~~is ON HOLD until Paper Publication~~	+	==FlgE D2 domain K336A mutant==
-		+	<StructureSection load='6ndv' size='340' side='right'caption='[[6ndv]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~Authors~~: ~~Lynch~~, M.J., ~~Crane~~, B.R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ndv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NDV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NDV FirstGlance]. <br>
-	~~Description: FlgE D2 domain K336A mutant~~	+	</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=6ndv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ndv OCA], [http://pdbe.org/6ndv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ndv RCSB], [http://www.ebi.ac.uk/pdbsum/6ndv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ndv ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Crane, B.R]]	+	__TOC__
-	[[Category: Lynch, M.J]]	+	</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 06:29:34 GMT

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

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

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

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

OCA — Wed, 26 Dec 2018 06:47:22 GMT

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

←Older revision

Revision as of 06:47, 26 December 2018

OCA: New page: '''Unreleased structure''' The entry 6ndv is ON HOLD Authors: Lynch, M.J., Crane, B.R. Description: FlgE D2 domain K336A mutant Category: Unreleased Structures [[Category: Crane, B...

OCA — Wed, 26 Dec 2018 06:47:20 GMT

New page: '''Unreleased structure''' The entry 6ndv is ON HOLD Authors: Lynch, M.J., Crane, B.R. Description: FlgE D2 domain K336A mutant Category: Unreleased Structures [[Category: Crane, B...

New page

'''Unreleased structure'''

The entry 6ndv is ON HOLD

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

Description: FlgE D2 domain K336A mutant
[[Category: Unreleased Structures]]
[[Category: Crane, B.R]]
[[Category: Lynch, M.J]]