5irb - Revision history

OCA at 12:35, 6 March 2024

OCA — Wed, 06 Mar 2024 12:35:21 GMT

←Older revision		Revision as of 12:35, 6 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/A1YIY2_9GAMM A1YIY2_9GAMM]		[https://www.uniprot.org/uniprot/A1YIY2_9GAMM A1YIY2_9GAMM]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Bacterial adhesins are modular cell-surface proteins that mediate adherence to other cells, surfaces, and ligands. The Antarctic bacterium Marinomonas primoryensis uses a 1.5-MDa adhesin comprising over 130 domains to position it on ice at the top of the water column for better access to oxygen and nutrients. We have reconstructed this 0.6-mum-long adhesin using a "dissect and build" structural biology approach and have established complementary roles for its five distinct regions. Domains in region I (RI) tether the adhesin to the type I secretion machinery in the periplasm of the bacterium and pass it through the outer membrane. RII comprises ~120 identical immunoglobulin-like beta-sandwich domains that rigidify on binding Ca2+ to project the adhesion regions RIII and RIV into the medium. RIII contains ligand-binding domains that join diatoms and bacteria together in a mixed-species community on the underside of sea ice where incident light is maximal. RIV is the ice-binding domain, and the terminal RV domain contains several "repeats-in-toxin" motifs and a noncleavable signal sequence that target proteins for export via the type I secretion system. Similar structural architecture is present in the adhesins of many pathogenic bacteria and provides a guide to finding and blocking binding domains to weaken infectivity.
-
-	Structure of a 1.5-MDa adhesin that binds its Antarctic bacterium to diatoms and ice.,Guo S, Stevens CA, Vance TDR, Olijve LLC, Graham LA, Campbell RL, Yazdi SR, Escobedo C, Bar-Dolev M, Yashunsky V, Braslavsky I, Langelaan DN, Smith SP, Allingham JS, Voets IK, Davies PL Sci Adv. 2017 Aug 9;3(8):e1701440. doi: 10.1126/sciadv.1701440. eCollection 2017 , Aug. PMID:28808685<ref>PMID:28808685</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5irb" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:06, 30 August 2023

OCA — Wed, 30 Aug 2023 14:06:56 GMT

←Older revision		Revision as of 14:06, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='5irb' size='340' side='right'caption='[[5irb]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5irb' size='340' side='right'caption='[[5irb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5irb]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Jcm_11775 Jcm 11775~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IRB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5IRB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5irb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Marinomonas_primoryensis Marinomonas primoryensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IRB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5IRB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2Å</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=5irb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5irb OCA], [~~http~~://pdbe.org/5irb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5irb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5irb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5irb ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5irb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5irb OCA], [https://pdbe.org/5irb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5irb RCSB], [https://www.ebi.ac.uk/pdbsum/5irb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5irb ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A1YIY2_9GAMM A1YIY2_9GAMM]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Jcm 11775]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Campbell, R]]	+	[[Category: Marinomonas primoryensis]]
-	[[Category: Davies, P]]	+	[[Category: Campbell R]]
-	[[Category: Guo, S]]	+	[[Category: Davies P]]
-	[[Category: Phippen, S]]	+	[[Category: Guo S]]
-	~~[[Category: Biofilm-associated protein]]~~	+	[[Category: Phippen S]]
-	~~[[Category: Cell adhesion]]~~	+
-	~~[[Category: Ice-binding protein]]~~	+
-	~~[[Category: Rtx-adhesin~~]]	+

OCA at 08:05, 8 January 2020

OCA — Wed, 08 Jan 2020 08:05:46 GMT

←Older revision		Revision as of 08:05, 8 January 2020
Line 1:		Line 1:

	==Structural insight into host cell surface retention of a 1.5-MDa bacterial ice-binding adhesin==		==Structural insight into host cell surface retention of a 1.5-MDa bacterial ice-binding adhesin==
-	<StructureSection load='5irb' size='340' side='right' caption='[[5irb]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5irb' size='340' side='right'caption='[[5irb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5irb]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IRB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5irb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Jcm_11775 Jcm 11775]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IRB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5irb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5irb OCA], [http://pdbe.org/5irb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5irb RCSB], [http://www.ebi.ac.uk/pdbsum/5irb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5irb 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=5irb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5irb OCA], [http://pdbe.org/5irb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5irb RCSB], [http://www.ebi.ac.uk/pdbsum/5irb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5irb ProSAT]</span></td></tr>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Jcm 11775]]
		+	[[Category: Large Structures]]
	[[Category: Campbell, R]]		[[Category: Campbell, R]]
	[[Category: Davies, P]]		[[Category: Davies, P]]

OCA at 03:44, 6 September 2017

OCA — Wed, 06 Sep 2017 03:44:43 GMT

←Older revision		Revision as of 03:44, 6 September 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5irb is ~~ON HOLD until Paper~~ Publication	+	==Structural insight into host cell surface retention of a 1.5-MDa bacterial ice-binding adhesin==
		+	<StructureSection load='5irb' size='340' side='right' caption='[[5irb]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5irb]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5IRB FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5irb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5irb OCA], [http://pdbe.org/5irb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5irb RCSB], [http://www.ebi.ac.uk/pdbsum/5irb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5irb ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacterial adhesins are modular cell-surface proteins that mediate adherence to other cells, surfaces, and ligands. The Antarctic bacterium Marinomonas primoryensis uses a 1.5-MDa adhesin comprising over 130 domains to position it on ice at the top of the water column for better access to oxygen and nutrients. We have reconstructed this 0.6-mum-long adhesin using a "dissect and build" structural biology approach and have established complementary roles for its five distinct regions. Domains in region I (RI) tether the adhesin to the type I secretion machinery in the periplasm of the bacterium and pass it through the outer membrane. RII comprises ~120 identical immunoglobulin-like beta-sandwich domains that rigidify on binding Ca2+ to project the adhesion regions RIII and RIV into the medium. RIII contains ligand-binding domains that join diatoms and bacteria together in a mixed-species community on the underside of sea ice where incident light is maximal. RIV is the ice-binding domain, and the terminal RV domain contains several "repeats-in-toxin" motifs and a noncleavable signal sequence that target proteins for export via the type I secretion system. Similar structural architecture is present in the adhesins of many pathogenic bacteria and provides a guide to finding and blocking binding domains to weaken infectivity.

-	~~Authors: Guo~~, S., ~~Phippen~~, S., Campbell, R., Davies, P.	+	Structure of a 1.5-MDa adhesin that binds its Antarctic bacterium to diatoms and ice.,Guo S, Stevens CA, Vance TDR, Olijve LLC, Graham LA, Campbell RL, Yazdi SR, Escobedo C, Bar-Dolev M, Yashunsky V, Braslavsky I, Langelaan DN, Smith SP, Allingham JS, Voets IK, Davies PL Sci Adv. 2017 Aug 9;3(8):e1701440. doi: 10.1126/sciadv.1701440. eCollection 2017 , Aug. PMID:28808685<ref>PMID:28808685</ref>

-	~~Description: Structural insight into host cell surface retention of~~ a 1.5-~~MDa bacterial ice~~-~~binding adhesin~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5irb" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Campbell, R]]		[[Category: Campbell, R]]
-	[[Category: Guo, S]]
	[[Category: Davies, P]]		[[Category: Davies, P]]
		+	[[Category: Guo, S]]
	[[Category: Phippen, S]]		[[Category: Phippen, S]]
		+	[[Category: Biofilm-associated protein]]
		+	[[Category: Cell adhesion]]
		+	[[Category: Ice-binding protein]]
		+	[[Category: Rtx-adhesin]]

OCA at 10:43, 22 March 2017

OCA — Wed, 22 Mar 2017 10:43:54 GMT

←Older revision		Revision as of 10:43, 22 March 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Guo, S., Phippen, S., Campbell, R., Davies, P.		Authors: Guo, S., Phippen, S., Campbell, R., Davies, P.

OCA at 14:48, 15 March 2017

OCA — Wed, 15 Mar 2017 14:48:44 GMT

←Older revision		Revision as of 14:48, 15 March 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5irb is ON HOLD ~~until Paper Publication~~	+	The entry 5irb is ON HOLD

	Authors: Guo, S., Phippen, S., Campbell, R., Davies, P.		Authors: Guo, S., Phippen, S., Campbell, R., Davies, P.

OCA at 09:39, 9 March 2017

OCA — Thu, 09 Mar 2017 09:39:04 GMT

←Older revision		Revision as of 09:39, 9 March 2017
Line 7:		Line 7:
	Description: Structural insight into host cell surface retention of a 1.5-MDa bacterial ice-binding adhesin		Description: Structural insight into host cell surface retention of a 1.5-MDa bacterial ice-binding adhesin
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Guo, S]]
-	[[Category: Phippen, S]]
	[[Category: Campbell, R]]		[[Category: Campbell, R]]
		+	[[Category: Guo, S]]
	[[Category: Davies, P]]		[[Category: Davies, P]]
		+	[[Category: Phippen, S]]

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

OCA — Wed, 11 May 2016 00:49:15 GMT

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

←Older revision

Revision as of 00:49, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5irb is ON HOLD until Paper Publication Authors: Guo, S., Phippen, S., Campbell, R., Davies, P. Description: Structural insight into host cell surf...

OCA — Wed, 11 May 2016 00:49:14 GMT

New page: '''Unreleased structure''' The entry 5irb is ON HOLD until Paper Publication Authors: Guo, S., Phippen, S., Campbell, R., Davies, P. Description: Structural insight into host cell surf...

New page

'''Unreleased structure'''

The entry 5irb is ON HOLD until Paper Publication

Authors: Guo, S., Phippen, S., Campbell, R., Davies, P.

Description: Structural insight into host cell surface retention of a 1.5-MDa bacterial ice-binding adhesin
[[Category: Unreleased Structures]]
[[Category: Guo, S]]
[[Category: Phippen, S]]
[[Category: Campbell, R]]
[[Category: Davies, P]]