5yxg - Revision history

OCA at 08:39, 22 November 2023

OCA — Wed, 22 Nov 2023 08:39:54 GMT

←Older revision		Revision as of 08:39, 22 November 2023
Line 1:		Line 1:

	==Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis==		==Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis==
-	<StructureSection load='5yxg' size='340' side='right' caption='[[5yxg]], [[Resolution\|resolution]] 1.48Å' scene=''>	+	<StructureSection load='5yxg' size='340' side='right'caption='[[5yxg]], [[Resolution\|resolution]] 1.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yxg]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lacrg Lacrg~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YXG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yxg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lacticaseibacillus_rhamnosus_GG Lacticaseibacillus rhamnosus GG]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YXG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CL:CHLORIDE+ION'>CL</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]] 1.48Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~SME~~:~~METHIONINE~~+~~SULFOXIDE~~'>~~SME~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[5yu5\|5yu5]]</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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [https://pdbe.org/5yxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [https://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg ProSAT]</span></td></tr>
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">CCE29_10230, PY66_09460 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=568703 LACRG])~~</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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [~~http~~://pdbe.org/5yxg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 23:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Lacrg~~]]	+	[[Category: Lacticaseibacillus rhamnosus GG]]
-	[[Category: ~~Chaurasia, P~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Krishnan, V~~]]	+	[[Category: Chaurasia P]]
-	[[Category: ~~Ossowski, I von~~]]	+	[[Category: Krishnan V]]
-	[[Category: Palva, A]]	+	[[Category: Palva A]]
-	[[Category: Pratap, S]]	+	[[Category: Pratap S]]
-	[[Category: ~~Adhesin]]~~	+	[[Category: Von Ossowski I]]
-	~~[[Category: Cell adhesion]]~~	+
-	~~[[Category: Isopeptide]]~~	+
-	~~[[Category: Pilin]]~~	+
-	~~[[Category: Probiotic]]~~	+
-	~~[[Category: Spad]]~~	+
-	~~[[Category: Spafed pili~~]]	+

OCA at 08:30, 17 October 2018

OCA — Wed, 17 Oct 2018 08:30:51 GMT

←Older revision		Revision as of 08:30, 17 October 2018
Line 10:		Line 10:
	<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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [http://pdbe.org/5yxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [http://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg 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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [http://pdbe.org/5yxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [http://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Effective colonization of host cells by some Gram-positive bacteria often involves using lengthy, adhesive macromolecular structures called sortase-dependent pili. Among commensals, the gut-adapted Lactobacillus rhamnosus GG strain encodes the operons for two varieties of these pili (SpaCBA and SpaFED), with each structure consisting of backbone, tip, and basal pilin subunits. Although the tertiary structure was recently solved for the backbone subunit (SpaA) of the SpaCBA pilus, no structural information exists for its counterpart in the SpaFED pilus. Here, we report several crystal structures for the SpaD backbone pilin, two of which capture the N-terminal domain in either the closed (linear) or open (bent) conformation. To our knowledge, this is the first observation of the bent conformation in Gram-positive pilin structures. Based on this bent conformation, we suggest a three-stage model, which we call the expose-ligate-seal mechanism, for the docking and assembly of backbone pilins into the sortase-dependent pilus.
		+
		+	Bent conformation of a backbone pilin N-terminal domain supports a three-stage pilus assembly mechanism.,Chaurasia P, Pratap S, Palva A, von Ossowski I, Krishnan V Commun Biol. 2018 Jul 17;1:94. doi: 10.1038/s42003-018-0100-0. eCollection 2018. PMID:30271975<ref>PMID:30271975</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5yxg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 19:05, 1 August 2018

OCA — Wed, 01 Aug 2018 19:05:06 GMT

←Older revision		Revision as of 19:05, 1 August 2018
Line 3:		Line 3:
	<StructureSection load='5yxg' size='340' side='right' caption='[[5yxg]], [[Resolution\|resolution]] 1.48Å' scene=''>		<StructureSection load='5yxg' size='340' side='right' caption='[[5yxg]], [[Resolution\|resolution]] 1.48Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yxg]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YXG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yxg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lacrg Lacrg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YXG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yu5\|5yu5]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yu5\|5yu5]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CCE29_10230, PY66_09460 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=568703 LACRG])</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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [http://pdbe.org/5yxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [http://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg 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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [http://pdbe.org/5yxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [http://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lacrg]]
	[[Category: Chaurasia, P]]		[[Category: Chaurasia, P]]
	[[Category: Krishnan, V]]		[[Category: Krishnan, V]]

OCA at 05:44, 20 June 2018

OCA — Wed, 20 Jun 2018 05:44:06 GMT

←Older revision		Revision as of 05:44, 20 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 5yxg is ON HOLD until Paper Publication~~	+	==Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis==
-		+	<StructureSection load='5yxg' size='340' side='right' caption='[[5yxg]], [[Resolution\|resolution]] 1.48Å' scene=''>
-	~~Authors: Chaurasia, P., Pratap, S., Palva, A., von Ossowski, I., Krishnan, V.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5yxg]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YXG FirstGlance]. <br>
-	~~Description:~~ Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene></td></tr>
-	[[~~Category~~: ~~Von Ossowski~~, I]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5yu5\|5yu5]]</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=5yxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yxg OCA], [http://pdbe.org/5yxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yxg RCSB], [http://www.ebi.ac.uk/pdbsum/5yxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yxg ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Chaurasia, P]]		[[Category: Chaurasia, P]]
-	[[Category: Pratap, S]]
	[[Category: Krishnan, V]]		[[Category: Krishnan, V]]
		+	[[Category: Ossowski, I von]]
	[[Category: Palva, A]]		[[Category: Palva, A]]
		+	[[Category: Pratap, S]]
		+	[[Category: Adhesin]]
		+	[[Category: Cell adhesion]]
		+	[[Category: Isopeptide]]
		+	[[Category: Pilin]]
		+	[[Category: Probiotic]]
		+	[[Category: Spad]]
		+	[[Category: Spafed pili]]

OCA at 04:28, 4 April 2018

OCA — Wed, 04 Apr 2018 04:28:11 GMT

←Older revision		Revision as of 04:28, 4 April 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Chaurasia, P., Pratap, S., Palva, A., von Ossowski, I., Krishnan, V.		Authors: Chaurasia, P., Pratap, S., Palva, A., von Ossowski, I., Krishnan, V.
Line 7:		Line 7:
	Description: Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis		Description: Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Pratap, S]]
-	[[Category: Palva, A]]
	[[Category: Von Ossowski, I]]		[[Category: Von Ossowski, I]]
	[[Category: Chaurasia, P]]		[[Category: Chaurasia, P]]
		+	[[Category: Pratap, S]]
	[[Category: Krishnan, V]]		[[Category: Krishnan, V]]
		+	[[Category: Palva, A]]

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

OCA — Wed, 13 Dec 2017 05:47:55 GMT

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

←Older revision

Revision as of 05:47, 13 December 2017

OCA: New page: '''Unreleased structure''' The entry 5yxg is ON HOLD Authors: Chaurasia, P., Pratap, S., Palva, A., von Ossowski, I., Krishnan, V. Description: Crystal structure of C-terminal fragment...

OCA — Wed, 13 Dec 2017 05:47:54 GMT

New page: '''Unreleased structure''' The entry 5yxg is ON HOLD Authors: Chaurasia, P., Pratap, S., Palva, A., von Ossowski, I., Krishnan, V. Description: Crystal structure of C-terminal fragment...

New page

'''Unreleased structure'''

The entry 5yxg is ON HOLD

Authors: Chaurasia, P., Pratap, S., Palva, A., von Ossowski, I., Krishnan, V.

Description: Crystal structure of C-terminal fragment of SpaD from Lactobacillus rhamnosus GG generated by limited proteolysis
[[Category: Unreleased Structures]]
[[Category: Pratap, S]]
[[Category: Palva, A]]
[[Category: Von Ossowski, I]]
[[Category: Chaurasia, P]]
[[Category: Krishnan, V]]