6oqk - Revision history

OCA at 10:57, 14 June 2023

OCA — Wed, 14 Jun 2023 10:57:20 GMT

←Older revision		Revision as of 10:57, 14 June 2023
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	==SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2/AA] AND PLASMINOGEN KRINGLE 2==		==SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2/AA] AND PLASMINOGEN KRINGLE 2==
-	<StructureSection load='6oqk' size='340' side='right'caption='[[6oqk~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='6oqk' size='340' side='right'caption='[[6oqk]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oqk]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"micrococcus_scarlatinae"_klein_1884 "micrococcus scarlatinae" klein 1884~~] and [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OQK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6OQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oqk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Streptococcus_pyogenes Streptococcus pyogenes]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OQK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OQK FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pam, emm ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1314 "Micrococcus scarlatinae" Klein 1884])</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=6oqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqk OCA], [https://pdbe.org/6oqk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6oqk RCSB], [https://www.ebi.ac.uk/pdbsum/6oqk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqk 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=6oqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqk OCA], [~~http~~://pdbe.org/6oqk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6oqk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6oqk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqk ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Disease ==
		+	[https://www.uniprot.org/uniprot/PLMN_HUMAN PLMN_HUMAN] Defects in PLG are the cause of plasminogen deficiency (PLGD) [MIM:[https://omim.org/entry/217090 217090]. PLGD is characterized by decreased serum plasminogen activity. Two forms of the disorder are distinguished: type 1 deficiency is additionally characterized by decreased plasminogen antigen levels and clinical symptoms, whereas type 2 deficiency, also known as dysplasminogenemia, is characterized by normal, or slightly reduced antigen levels, and absence of clinical manifestations. Plasminogen deficiency type 1 results in markedly impaired extracellular fibrinolysis and chronic mucosal pseudomembranous lesions due to subepithelial fibrin deposition and inflammation. The most common clinical manifestation of type 1 deficiency is ligneous conjunctivitis in which pseudomembranes formation on the palpebral surfaces of the eye progresses to white, yellow-white, or red thick masses with a wood-like consistency that replace the normal mucosa.<ref>PMID:1986355</ref> <ref>PMID:8392398</ref> <ref>PMID:6216475</ref> <ref>PMID:6238949</ref> <ref>PMID:1427790</ref> <ref>PMID:9242524</ref> <ref>PMID:9858247</ref> <ref>PMID:10233898</ref>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~PAM_STRPY PAM_STRPY~~]~~] Binds to human plasminogen (~~and ~~plasmin) via its kringle repeats. Also binds to albumin~~, ~~immunoglobulin G~~ and ~~fibrinogen~~. ~~Could provide~~ the ~~bacteria with a mechanism for invasion~~, as ~~streptococcal-bound plasmin could permit~~ tissue ~~penetration~~.	+	[https://www.uniprot.org/uniprot/PLMN_HUMAN PLMN_HUMAN] Plasmin dissolves the fibrin of blood clots and acts as a proteolytic factor in a variety of other processes including embryonic development, tissue remodeling, tumor invasion, and inflammation. In ovulation, weakens the walls of the Graafian follicle. It activates the urokinase-type plasminogen activator, collagenases and several complement zymogens, such as C1 and C5. Cleavage of fibronectin and laminin leads to cell detachment and apoptosis. Also cleaves fibrin, thrombospondin and von Willebrand factor. Its role in tissue remodeling and tumor invasion may be modulated by CSPG4. Binds to cells.<ref>PMID:14699093</ref> Angiostatin is an angiogenesis inhibitor that blocks neovascularization and growth of experimental primary and metastatic tumors in vivo.<ref>PMID:14699093</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6oqk" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6oqk" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Plasminogen 3D structures\|Plasminogen 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Micrococcus scarlatinae klein 1884]]~~	+	[[Category: Homo sapiens]]
-	~~[[Category: Human~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Castellino, F J~~]]	+	[[Category: Streptococcus pyogenes]]
-	[[Category: ~~Yuan, Y~~]]	+	[[Category: Castellino FJ]]
-	[[Category: ~~Blood clotting]]~~	+	[[Category: Yuan Y]]
-	~~[[Category: Plasminogen binding peptide]]~~	+
-	~~[[Category: Protein binding~~]]	+

OCA at 11:16, 2 October 2019

OCA — Wed, 02 Oct 2019 11:16:21 GMT

←Older revision		Revision as of 11:16, 2 October 2019
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	<StructureSection load='6oqk' size='340' side='right'caption='[[6oqk]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='6oqk' size='340' side='right'caption='[[6oqk]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oqk]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oqk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_scarlatinae"_klein_1884 "micrococcus scarlatinae" klein 1884] and [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OQK 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=6oqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqk OCA], [http://pdbe.org/6oqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oqk RCSB], [http://www.ebi.ac.uk/pdbsum/6oqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqk ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pam, emm ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1314 "Micrococcus scarlatinae" Klein 1884])</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=6oqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqk OCA], [http://pdbe.org/6oqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oqk RCSB], [http://www.ebi.ac.uk/pdbsum/6oqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Micrococcus scarlatinae klein 1884]]
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Castellino, F J]]		[[Category: Castellino, F J]]

OCA at 06:22, 24 July 2019

OCA — Wed, 24 Jul 2019 06:22:37 GMT

←Older revision		Revision as of 06:22, 24 July 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6oqk is ~~ON HOLD until Paper~~ Publication	+	==SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2/AA] AND PLASMINOGEN KRINGLE 2==
		+	<StructureSection load='6oqk' size='340' side='right'caption='[[6oqk]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6oqk]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OQK 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=6oqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqk OCA], [http://pdbe.org/6oqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oqk RCSB], [http://www.ebi.ac.uk/pdbsum/6oqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqk ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PAM_STRPY PAM_STRPY]] Binds to human plasminogen (and plasmin) via its kringle repeats. Also binds to albumin, immunoglobulin G and fibrinogen. Could provide the bacteria with a mechanism for invasion, as streptococcal-bound plasmin could permit tissue penetration.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	VEK50 is a truncated peptide from a Streptococcal pyogenes surface human plasminogen (hPg) binding M-protein (PAM). VEK50 contains the full A-domain of PAM, which is responsible for its low nanomolar binding to hPg. The interaction of VEK50 with kringle 2, the PAM-binding domain in hPg (K2hPg), has been studied by high-resolution NMR spectroscopy. The data show that each VEK50 monomer in solution contains two tight binding sites for K2hPg, one each in the a1- (RH1; R(17)H(18)) and a2- (RH2; R(30)H(31)) repeats within the A-domain of VEK50. Two mutant forms of VEK50, viz., VEK50[RH1/AA] (VEK50(DeltaRH1)) and VEK50[RH2/AA] (VEK50(DeltaRH2)), were designed by replacing each RH with AA, thus eliminating one of the K2hPg binding sites within VEK50, and allowing separate study of each binding site. Using (13)C- and (15)N-labeled peptides, NMR-derived solution structures of VEK50 in its complex with K2hPg were solved. We conclude that the A-domain of PAM can accommodate two molecules of K2hPg docked within a short distance of each other, and the strength of the binding is slightly different for each site. The solution structure of the VEK50/K2hPg, complex, which is a reductionist model of the PAM/hPg complex, provides insights for the binding mechanism of PAM to a host protein, a process that is critical to S. pyogenes virulence.

-	~~Authors: Yuan~~, Y., Castellino, F.J.	+	Solution structural model of the complex of the binding regions of human plasminogen with its M-protein receptor from Streptococcus pyogenes.,Yuan Y, Ayinuola YA, Singh D, Ayinuola O, Mayfield JA, Quek A, Whisstock JC, Law RHP, Lee SW, Ploplis VA, Castellino FJ J Struct Biol. 2019 Jul 10. pii: S1047-8477(19)30154-6. doi:, 10.1016/j.jsb.2019.07.005. PMID:31301349<ref>PMID:31301349</ref>

-	~~Description~~: ~~SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2~~/~~AA] AND PLASMINOGEN KRINGLE 2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6oqk" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Castellino, F J]]
	[[Category: Yuan, Y]]		[[Category: Yuan, Y]]
-	[[Category: ~~Castellino, F.J~~]]	+	[[Category: Blood clotting]]
		+	[[Category: Plasminogen binding peptide]]
		+	[[Category: Protein binding]]

OCA at 05:45, 21 May 2019

OCA — Tue, 21 May 2019 05:45:45 GMT

←Older revision		Revision as of 05:45, 21 May 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Yuan, Y., Castellino, F.J.		Authors: Yuan, Y., Castellino, F.J.

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

OCA — Fri, 10 May 2019 07:57:47 GMT

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

←Older revision

Revision as of 07:57, 10 May 2019

OCA: New page: '''Unreleased structure''' The entry 6oqk is ON HOLD Authors: Yuan, Y., Castellino, F.J. Description: SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2/AA] AND PLASMINOGEN KRINGLE ...

OCA — Fri, 10 May 2019 07:57:44 GMT

New page: '''Unreleased structure''' The entry 6oqk is ON HOLD Authors: Yuan, Y., Castellino, F.J. Description: SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2/AA] AND PLASMINOGEN KRINGLE ...

New page

'''Unreleased structure'''

The entry 6oqk is ON HOLD

Authors: Yuan, Y., Castellino, F.J.

Description: SOLUTION STRUCTURE OF THE COMPLEX OF MUTANT VEK50[RH2/AA] AND PLASMINOGEN KRINGLE 2
[[Category: Unreleased Structures]]
[[Category: Yuan, Y]]
[[Category: Castellino, F.J]]