4kkq - Revision history

OCA at 12:13, 1 March 2024

2024-03-01T12:13:41Z

←Older revision		Revision as of 12:13, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>
-	</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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [https://pdbe.org/4kkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [https://www.ebi.ac.uk/pdbsum/4kkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkq ProSAT]</span></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]] 2.16Å</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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [https://pdbe.org/4kkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [https://www.ebi.ac.uk/pdbsum/4kkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkq 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 4kkq" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:56, 7 December 2022

2022-12-07T08:56:39Z

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

	==Crystal structure of Vibrio cholerae RbmA (crystal form 1)==		==Crystal structure of Vibrio cholerae RbmA (crystal form 1)==
-	<StructureSection load='4kkq' size='340' side='right' caption='[[4kkq]], [[Resolution\|resolution]] 2.16Å' scene=''>	+	<StructureSection load='4kkq' size='340' side='right'caption='[[4kkq]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkr\|4kkr]]</td></tr>~~	+	</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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [https://pdbe.org/4kkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [https://www.ebi.ac.uk/pdbsum/4kkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkq 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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [~~http~~://pdbe.org/4kkq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kkq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkq ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 21:		Line 19:
	__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 04:27, 5 August 2016

2016-08-05T04:27:05Z

←Older revision		Revision as of 04:27, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Vibrio cholerae RbmA (crystal form 1)==		==Crystal structure of Vibrio cholerae RbmA (crystal form 1)==
	<StructureSection load='4kkq' size='340' side='right' caption='[[4kkq]], [[Resolution\|resolution]] 2.16Å' scene=''>		<StructureSection load='4kkq' size='340' side='right' caption='[[4kkq]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkr\|4kkr]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkr\|4kkr]]</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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [http://www.ebi.ac.uk/pdbsum/4kkq 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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [http://pdbe.org/4kkq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [http://www.ebi.ac.uk/pdbsum/4kkq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kkq ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4kkq" 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 15:19, 21 December 2014

2014-12-21T15:19:25Z

←Older revision		Revision as of 15:19, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4kkq\| PDB=4kkq \| SCENE= }}~~	+	==Crystal structure of Vibrio cholerae RbmA (crystal form 1)==
-	===Crystal structure of Vibrio cholerae RbmA (crystal form 1)===	+	<StructureSection load='4kkq' size='340' side='right' caption='[[4kkq]], [[Resolution\|resolution]] 2.16Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23687270}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4kkq]] 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=4KKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KKQ FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kkp\|4kkp]], [[4kkr\|4kkr]]</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=4kkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kkq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kkq RCSB], [http://www.ebi.ac.uk/pdbsum/4kkq 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>
-	~~[[4kkq]] 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=4KKQ 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 15:41, 19 June 2013

2013-06-19T15:41:53Z

←Older revision		Revision as of 15:41, 19 June 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4kkq\| PDB=4kkq \| SCENE= }}
		+	===Crystal structure of Vibrio cholerae RbmA (crystal form 1)===
		+	{{ABSTRACT_PUBMED_23687270}}

-	~~The entry~~ 4kkq is ~~ON HOLD~~	+	==About this Structure==
		+	[[4kkq]] 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=4KKQ 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 1)~~	+	[[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 "4kkq" [edit=sysop:move=sysop]

2013-05-16T06:58:07Z

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

←Older revision

Revision as of 06:58, 16 May 2013

OCA: New page: '''Unreleased structure''' The entry 4kkq is ON HOLD Authors: Sondermann, H., Giglio, K.M. Description: Crystal structure of Vibrio cholerae RbmA (crystal form 1)

2013-05-16T06:58:06Z

New page: '''Unreleased structure''' The entry 4kkq is ON HOLD Authors: Sondermann, H., Giglio, K.M. Description: Crystal structure of Vibrio cholerae RbmA (crystal form 1)

New page

'''Unreleased structure'''

The entry 4kkq is ON HOLD

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

Description: Crystal structure of Vibrio cholerae RbmA (crystal form 1)