4kkr - Revision history

OCA at 12:13, 1 March 2024

OCA — Fri, 01 Mar 2024 12:13:43 GMT

←Older revision		Revision as of 12:13, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae_MJ-1236 Vibrio cholerae MJ-1236]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KKR FirstGlance]. <br>		<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae_MJ-1236 Vibrio cholerae MJ-1236]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KKR FirstGlance]. <br>
-	</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></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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [https://pdbe.org/4kkr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [https://www.ebi.ac.uk/pdbsum/4kkr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkr 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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [https://pdbe.org/4kkr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [https://www.ebi.ac.uk/pdbsum/4kkr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkr ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	During the transition from a free-swimming, single-cell life-style to a sessile, multicellular state called a biofilm, bacteria produce and secrete an extracellular matrix comprised of nucleic acids, exopolysaccharides and adhesion proteins. The Vibrio cholerae biofilm matrix contains three major protein components, RbmA, Bap1 and RbmC, which are unique to Vibrio cholerae and appear to support biofilm formation at particular steps in the process. Here, we focus on RbmA, a structural protein with an unknown fold. RbmA participates in the early cell-cell adhesion events, and is found throughout the biofilm where it localizes to cell-cell contact sites. We determined crystal structures of RbmA and revealed that the protein folds into tandem fibronectin III (FnIII) folds. The protein is dimeric in solution and in crystals, with the dimer interface displaying a surface groove that is lined with several positively charged residues. Structure-guided mutagenesis studies establish a crucial role for this surface patch for RbmA function. Based on the structure, we hypothesize that RbmA serves as a tether by maintaining flexible linkages between cells and the extracellular matrix.
-
-	Structural basis for biofilm formation via the Vibrio cholerae matrix protein RbmA.,Giglio KM, Fong JC, Yildiz FH, Sondermann H J Bacteriol. 2013 May 17. PMID:23687270<ref>PMID:23687270</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4kkr" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:56, 7 December 2022

OCA — Wed, 07 Dec 2022 08:56:40 GMT

←Older revision		Revision as of 08:56, 7 December 2022
Line 1:		Line 1:

	==Crystal structure of Vibrio cholerae RbmA (crystal form 3)==		==Crystal structure of Vibrio cholerae RbmA (crystal form 3)==
-	<StructureSection load='4kkr' size='340' side='right' caption='[[4kkr]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='4kkr' size='340' side='right'caption='[[4kkr]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Vibcj Vibcj~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KKR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae_MJ-1236 Vibrio cholerae MJ-1236]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KKR 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" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkq\|4kkq]]</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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [https://pdbe.org/4kkr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [https://www.ebi.ac.uk/pdbsum/4kkr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkr ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VCD_003406 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=593588 VIBCJ])~~</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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [~~http~~://pdbe.org/4kkr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kkr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkr ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibcj~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Giglio, K M]]~~	+	[[Category: Vibrio cholerae MJ-1236]]
-	~~[[Category: Sondermann, H]]~~	+	[[Category: Giglio KM]]
-	~~[[Category: Fn~~-~~iii~~]]	+	[[Category: Sondermann H]]
-	[[Category: ~~Matrix protein~~]]	+
-	[[Category: ~~Secreted]]~~	+
-	~~[[Category: Structural protein~~]]	+

OCA at 17:13, 4 August 2016

OCA — Thu, 04 Aug 2016 17:13:24 GMT

←Older revision		Revision as of 17:13, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Vibrio cholerae RbmA (crystal form 3)==		==Crystal structure of Vibrio cholerae RbmA (crystal form 3)==
	<StructureSection load='4kkr' size='340' side='right' caption='[[4kkr]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='4kkr' size='340' side='right' caption='[[4kkr]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Vibrio_cholerae_mj-1236 Vibrio cholerae mj-1236~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KKR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibcj Vibcj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KKR 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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkq\|4kkq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkq\|4kkq]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VCD_003406 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=593588 ~~Vibrio cholerae MJ-1236~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VCD_003406 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=593588 VIBCJ])</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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [http://www.ebi.ac.uk/pdbsum/4kkr PDBsum]</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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [http://pdbe.org/4kkr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [http://www.ebi.ac.uk/pdbsum/4kkr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkr ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4kkr" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio cholerae mj-1236~~]]	+	[[Category: Vibcj]]
	[[Category: Giglio, K M]]		[[Category: Giglio, K M]]
	[[Category: Sondermann, H]]		[[Category: Sondermann, H]]

OCA at 14:41, 21 December 2014

OCA — Sun, 21 Dec 2014 14:41:27 GMT

←Older revision		Revision as of 14:41, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4kkr\| PDB=4kkr \| SCENE= }}~~	+	==Crystal structure of Vibrio cholerae RbmA (crystal form 3)==
-	===Crystal structure of Vibrio cholerae RbmA (crystal form 3)===	+	<StructureSection load='4kkr' size='340' side='right' caption='[[4kkr]], [[Resolution\|resolution]] 2.00Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23687270}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4kkr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_cholerae_mj-1236 Vibrio cholerae mj-1236]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KKR 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>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkq\|4kkq]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VCD_003406 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=593588 Vibrio cholerae MJ-1236])</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=4kkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kkr RCSB], [http://www.ebi.ac.uk/pdbsum/4kkr PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	During the transition from a free-swimming, single-cell life-style to a sessile, multicellular state called a biofilm, bacteria produce and secrete an extracellular matrix comprised of nucleic acids, exopolysaccharides and adhesion proteins. The Vibrio cholerae biofilm matrix contains three major protein components, RbmA, Bap1 and RbmC, which are unique to Vibrio cholerae and appear to support biofilm formation at particular steps in the process. Here, we focus on RbmA, a structural protein with an unknown fold. RbmA participates in the early cell-cell adhesion events, and is found throughout the biofilm where it localizes to cell-cell contact sites. We determined crystal structures of RbmA and revealed that the protein folds into tandem fibronectin III (FnIII) folds. The protein is dimeric in solution and in crystals, with the dimer interface displaying a surface groove that is lined with several positively charged residues. Structure-guided mutagenesis studies establish a crucial role for this surface patch for RbmA function. Based on the structure, we hypothesize that RbmA serves as a tether by maintaining flexible linkages between cells and the extracellular matrix.

-	~~==About this Structure==~~	+	Structural basis for biofilm formation via the Vibrio cholerae matrix protein RbmA.,Giglio KM, Fong JC, Yildiz FH, Sondermann H J Bacteriol. 2013 May 17. PMID:23687270<ref>PMID:23687270</ref>
-	~~[[4kkr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_cholerae_mj-1236~~ Vibrio cholerae ~~mj-1236]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4KKR OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023687270</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Vibrio cholerae mj-1236]]		[[Category: Vibrio cholerae mj-1236]]
-	[[Category: Giglio, K M.]]	+	[[Category: Giglio, K M]]
-	[[Category: Sondermann, H.]]	+	[[Category: Sondermann, H]]
	[[Category: Fn-iii]]		[[Category: Fn-iii]]
	[[Category: Matrix protein]]		[[Category: Matrix protein]]
	[[Category: Secreted]]		[[Category: Secreted]]
	[[Category: Structural protein]]		[[Category: Structural protein]]

OCA at 13:53, 19 June 2013

OCA — Wed, 19 Jun 2013 13:53:14 GMT

←Older revision		Revision as of 13:53, 19 June 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4kkr\| PDB=4kkr \| SCENE= }}
		+	===Crystal structure of Vibrio cholerae RbmA (crystal form 3)===
		+	{{ABSTRACT_PUBMED_23687270}}

-	~~The entry~~ 4kkr is ~~ON HOLD~~	+	==About this Structure==
		+	[[4kkr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_cholerae_mj-1236 Vibrio cholerae mj-1236]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KKR OCA].

-	~~Authors~~: ~~Sondermann, H.,~~ Giglio, K.M.	+	==Reference==
-		+	<ref group="xtra">PMID:023687270</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of Vibrio cholerae RbmA (crystal form 3)~~	+	[[Category: Vibrio cholerae mj-1236]]
		+	[[Category: Giglio, K M.]]
		+	[[Category: Sondermann, H.]]
		+	[[Category: Fn-iii]]
		+	[[Category: Matrix protein]]
		+	[[Category: Secreted]]
		+	[[Category: Structural protein]]

OCA: Protected "4kkr" [edit=sysop:move=sysop]

OCA — Thu, 16 May 2013 06:58:09 GMT

Protected "4kkr" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:58, 16 May 2013

OCA: New page: '''Unreleased structure''' The entry 4kkr is ON HOLD Authors: Sondermann, H., Giglio, K.M. Description: Crystal structure of Vibrio cholerae RbmA (crystal form 3)

OCA — Thu, 16 May 2013 06:58:08 GMT

New page: '''Unreleased structure''' The entry 4kkr is ON HOLD Authors: Sondermann, H., Giglio, K.M. Description: Crystal structure of Vibrio cholerae RbmA (crystal form 3)

New page

'''Unreleased structure'''

The entry 4kkr is ON HOLD

Authors: Sondermann, H., Giglio, K.M.

Description: Crystal structure of Vibrio cholerae RbmA (crystal form 3)