3zlb - Revision history

OCA at 11:05, 20 December 2023

2023-12-20T11:05:08Z

←Older revision		Revision as of 11:05, 20 December 2023
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	<StructureSection load='3zlb' size='340' side='right'caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='3zlb' size='340' side='right'caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3zlb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Strp2 Strp2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZLB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3zlb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_D39 Streptococcus pneumoniae D39]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZLB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.78Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [https://pdbe.org/3zlb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [https://www.ebi.ac.uk/pdbsum/3zlb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zlb 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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [https://pdbe.org/3zlb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [https://www.ebi.ac.uk/pdbsum/3zlb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zlb ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PGK_STRP2 PGK_STRP2]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phosphoglycerate kinase]]~~	+	[[Category: Streptococcus pneumoniae D39]]
-	~~[[Category: Strp2~~]]	+	[[Category: Bernardo-Garcia N]]
-	[[Category: Bernardo-Garcia, N]]	+	[[Category: Hermoso JA]]
-	[[Category: Hermoso~~, J A]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 05:50, 10 August 2022

2022-08-10T05:50:28Z

←Older revision		Revision as of 05:50, 10 August 2022
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	==Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae==		==Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae==
-	<StructureSection load='3zlb' size='340' side='right' caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>	+	<StructureSection load='3zlb' size='340' side='right'caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3zlb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Strp2 Strp2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZLB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3ZLB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3zlb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Strp2 Strp2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZLB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] </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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [~~http~~://pdbe.org/3zlb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3zlb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3zlb 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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [https://pdbe.org/3zlb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [https://www.ebi.ac.uk/pdbsum/3zlb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zlb ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 19:

	==See Also==		==See Also==
-	*[[Phosphoglycerate ~~Kinase~~\|Phosphoglycerate ~~Kinase~~]]	+	*[[Phosphoglycerate kinase 3D structures\|Phosphoglycerate kinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Phosphoglycerate kinase]]		[[Category: Phosphoglycerate kinase]]
	[[Category: Strp2]]		[[Category: Strp2]]

OCA at 19:39, 11 August 2016

2016-08-11T19:39:57Z

←Older revision		Revision as of 19:39, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae==		==Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae==
	<StructureSection load='3zlb' size='340' side='right' caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='3zlb' size='340' side='right' caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] </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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [http://www.ebi.ac.uk/pdbsum/3zlb 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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [http://pdbe.org/3zlb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [http://www.ebi.ac.uk/pdbsum/3zlb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3zlb 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 3zlb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 12:30, 5 January 2015

2015-01-05T12:30:05Z

←Older revision		Revision as of 12:30, 5 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_3zlb\| PDB=3zlb \| SCENE= }}~~	+	==Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae==
-	===Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae===	+	<StructureSection load='3zlb' size='340' side='right' caption='[[3zlb]], [[Resolution\|resolution]] 1.78Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24196407}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3zlb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strp2 Strp2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ZLB FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] </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=3zlb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zlb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3zlb RCSB], [http://www.ebi.ac.uk/pdbsum/3zlb PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Streptococcus pneumoniae is not only a commensal of the nasopharyngeal epithelium, but may also cause life-threatening diseases. Immune-electron microscopy studies revealed that the bacterial glycolytic enzyme, phosphoglycerate kinase (PGK), is localised on the pneumococcal surface of both encapsulated and non-capsulated strains and colocalises with plasminogen. Since pneumococci may concentrate host plasminogen (PLG) together with its activators on the bacterial cell surface to facilitate the formation of plasmin, the involvement of PGK in this process was studied. Specific binding of human or murine PLG to strain-independent PGK was documented, and surface plasmon resonance analyses indicated a high affinity interaction with the kringle domains 1-4 of PLG. Crystal structure determination of pneumococcal PGK together with peptide array analysis revealed localisation of PLG-binding site in the N-terminal region and provided structural motifs for the interaction with PLG. Based on structural analysis data, a potential interaction of PGK with tissue plasminogen activator (tPA) was proposed and experimentally confirmed by binding studies, plasmin activity assays and thrombus degradation analyses.

-	~~==About this Structure==~~	+	Pneumococcal phosphoglycerate kinase interacts with plasminogen and its tissue activator.,Fulde M, Bernardo-Garcia N, Rohde M, Nachtigall N, Frank R, Preissner KT, Klett J, Morreale A, Chhatwal GS, Hermoso JA, Bergmann S Thromb Haemost. 2013 Nov 7;111(3). PMID:24196407<ref>PMID:24196407</ref>
-	~~[[3zlb]] is a 1 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=3ZLB OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:024196407</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+
		+	==See Also==
		+	*[[Phosphoglycerate Kinase\|Phosphoglycerate Kinase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Phosphoglycerate kinase]]		[[Category: Phosphoglycerate kinase]]
-	[[Category: Bernardo-Garcia, N.]]	+	[[Category: Strp2]]
-	[[Category: Hermoso, J A.]]	+	[[Category: Bernardo-Garcia, N]]
		+	[[Category: Hermoso, J A]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 05:06, 13 February 2014

2014-02-13T05:06:30Z

←Older revision		Revision as of 05:06, 13 February 2014
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_3zlb\| PDB=3zlb \| SCENE= }}
		+	===Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae===
		+	{{ABSTRACT_PUBMED_24196407}}

-	~~The entry~~ 3zlb is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[3zlb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZLB OCA].

-	~~Authors~~: Bernardo-Garcia, N., Hermoso, J.A.	+	==Reference==
-		+	<ref group="xtra">PMID:024196407</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae~~	+	[[Category: Phosphoglycerate kinase]]
		+	[[Category: Bernardo-Garcia, N.]]
		+	[[Category: Hermoso, J A.]]
		+	[[Category: Transferase]]

OCA at 08:03, 27 March 2013

2013-03-27T08:03:23Z

←Older revision		Revision as of 08:03, 27 March 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3zlb is ON HOLD	+	The entry 3zlb is ON HOLD until Paper Publication

	Authors: Bernardo-Garcia, N., Hermoso, J.A.		Authors: Bernardo-Garcia, N., Hermoso, J.A.

	Description: Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae		Description: Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae

OCA at 14:06, 27 February 2013

2013-02-27T14:06:22Z

←Older revision		Revision as of 14:06, 27 February 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3zlb is ON HOLD ~~until sometime in the future~~	+	The entry 3zlb is ON HOLD

	Authors: Bernardo-Garcia, N., Hermoso, J.A.		Authors: Bernardo-Garcia, N., Hermoso, J.A.

	Description: Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae		Description: Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae

OCA: Protected "3zlb" [edit=sysop:move=sysop]

2013-02-06T12:16:10Z

Protected "3zlb" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:16, 6 February 2013

OCA: New page: '''Unreleased structure''' The entry 3zlb is ON HOLD until sometime in the future Authors: Bernardo-Garcia, N., Hermoso, J.A. Description: Crystal structure of phosphoglycerate kinase ...

2013-02-06T12:16:09Z

New page: '''Unreleased structure''' The entry 3zlb is ON HOLD until sometime in the future Authors: Bernardo-Garcia, N., Hermoso, J.A. Description: Crystal structure of phosphoglycerate kinase ...

New page

'''Unreleased structure'''

The entry 3zlb is ON HOLD until sometime in the future

Authors: Bernardo-Garcia, N., Hermoso, J.A.

Description: Crystal structure of phosphoglycerate kinase from Streptococcus pneumoniae