3ldm - Revision history

OCA at 07:06, 7 October 2020

2020-10-07T07:06:05Z

←Older revision		Revision as of 07:06, 7 October 2020
Line 1:		Line 1:

	==Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding==		==Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding==
-	<StructureSection load='3ldm' size='340' side='right' caption='[[3ldm]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='3ldm' size='340' side='right'caption='[[3ldm]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ldm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3LDM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ldm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3LDM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ldj\|3ldj]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ldj\|3ldj]]</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=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://pdbe.org/3ldm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ldm ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://pdbe.org/3ldm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ldm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[~~Basic Pancreatic Trypsin Inhibitor~~\|~~Basic Pancreatic Trypsin Inhibitor~~]]	+	*[[BPTI 3D structures\|BPTI 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
		+	[[Category: Large Structures]]
	[[Category: Kim, K H]]		[[Category: Kim, K H]]
	[[Category: Kim, T G]]		[[Category: Kim, T G]]

OCA at 06:43, 2 January 2019

2019-01-02T06:43:09Z

←Older revision		Revision as of 06:43, 2 January 2019
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ld/3ldm_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ld/3ldm_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 22:32, 5 August 2016

2016-08-05T22:32:23Z

←Older revision		Revision as of 22:32, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding==		==Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding==
	<StructureSection load='3ldm' size='340' side='right' caption='[[3ldm]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3ldm' size='340' side='right' caption='[[3ldm]], [[Resolution\|resolution]] 2.60Å' scene=''>
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	<table><tr><td colspan='2'>[[3ldm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LDM FirstGlance]. <br>		<table><tr><td colspan='2'>[[3ldm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LDM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ldj\|3ldj]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ldj\|3ldj]]</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=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm 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=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://pdbe.org/3ldm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ldm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3ldm ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3ldm" style="background-color:#fffaf0;"></div>

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

OCA at 06:25, 25 December 2014

2014-12-25T06:25:02Z

←Older revision		Revision as of 06:25, 25 December 2014
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	<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=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm 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=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BPT1_BOVIN BPT1_BOVIN]] Inhibits trypsin, kallikrein, chymotrypsin, and plasmin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:56, 9 December 2014

2014-12-09T08:56:23Z

←Older revision		Revision as of 08:56, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3ldm.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding==
		+	<StructureSection load='3ldm' size='340' side='right' caption='[[3ldm]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ldm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LDM FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ldj\|3ldj]]</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=3ldm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ldm RCSB], [http://www.ebi.ac.uk/pdbsum/3ldm PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ld/3ldm_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The crystal structures of aprotinin and its complex with sucrose octasulfate (SOS), a polysulfated heparin analog, were determined at 1.7-2.6A resolutions. Aprotinin is monomeric in solution, which associates into a decamer at high salt concentrations. Sulfate ions serve to neutralize the basic amino acid residues of aprotinin to stabilize the decameric aprotinin. Whereas SOS interacts with heparin binding proteins at 1:1 molar ratio, SOS was surprisingly found to induce strong agglutination of aprotinins. Five molecules of aprotinin interact with one molecule of the sulfated sugar, which is stabilized by electrostatic interactions between the positively charged residues of aprotinin and sulfate groups of SOS. The multiple binding modes of SOS with five individual aprotinin molecules may represent the diverse patterns of potential heparin binding to aprotinin, reflecting the interactions of densely packed protein molecules along the heparin polymer.

-	~~{{STRUCTURE_3ldm\| PDB=3ldm \| SCENE= }}~~	+	Crystal structures of aprotinin and its complex with sucrose octasulfate reveal multiple modes of interactions with implications for heparin binding.,Yang IS, Kim TG, Park BS, Cho KJ, Lee JH, Park Y, Kim KH Biochem Biophys Res Commun. 2010 Jul 2;397(3):429-35. Epub 2010 May 27. PMID:20529698<ref>PMID:20529698</ref>

-	~~===Crystal structure~~ of ~~aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20529698}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3ldm]] is a 5 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bos_taurus Bos taurus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA].~~	+

	==See Also==		==See Also==
	*[[Basic Pancreatic Trypsin Inhibitor\|Basic Pancreatic Trypsin Inhibitor]]		*[[Basic Pancreatic Trypsin Inhibitor\|Basic Pancreatic Trypsin Inhibitor]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:020529698<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
-	[[Category: Kim, K H.]]	+	[[Category: Kim, K H]]
-	[[Category: Kim, T G.]]	+	[[Category: Kim, T G]]
-	[[Category: Park, B S.]]	+	[[Category: Park, B S]]
-	[[Category: Yang, I S.]]	+	[[Category: Yang, I S]]
	[[Category: Aprotinin]]		[[Category: Aprotinin]]
	[[Category: Hydrolase inhibitor]]		[[Category: Hydrolase inhibitor]]
	[[Category: Sucrose octasulfate]]		[[Category: Sucrose octasulfate]]

OCA at 13:39, 20 October 2012

2012-10-20T13:39:04Z

←Older revision		Revision as of 13:39, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[3ldm]] is a 5 chain structure ~~of [[Basic Pancreatic Trypsin Inhibitor]]~~ with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA].	+	[[3ldm]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA].

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

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

2012-07-26T12:38:47Z

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

←Older revision

Revision as of 12:38, 26 July 2012

OCA at 12:38, 26 July 2012

2012-07-26T12:38:44Z

←Older revision		Revision as of 12:38, 26 July 2012
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-	~~{{Seed}}~~	+	[[Image:3ldm.png\|left\|200px]]
-	[[Image:3ldm.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ldm", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3ldm\| PDB=3ldm \| SCENE= }}		{{STRUCTURE_3ldm\| PDB=3ldm \| SCENE= }}

	===Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding===		===Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20529698}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20529698 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20529698}}		{{ABSTRACT_PUBMED_20529698}}

	==About this Structure==		==About this Structure==
-	~~3LDM~~ is a 5 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA].	+	[[3ldm]] is a 5 chain structure of [[Basic Pancreatic Trypsin Inhibitor]] with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA].
		+
		+	==See Also==
		+	*[[Basic Pancreatic Trypsin Inhibitor\|Basic Pancreatic Trypsin Inhibitor]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20529698~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020529698</ref><references group="xtra"/>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Kim, K H.]]		[[Category: Kim, K H.]]
Line 32:		Line 23:
	[[Category: Hydrolase inhibitor]]		[[Category: Hydrolase inhibitor]]
	[[Category: Sucrose octasulfate]]		[[Category: Sucrose octasulfate]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:50:08 2010''

OCA at 04:44, 23 June 2010

2010-06-23T04:44:50Z

←Older revision		Revision as of 04:44, 23 June 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3ldm.jpg\|left\|200px]]

-	The ~~entry 3ldm~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3ldm", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3ldm\| PDB=3ldm \| SCENE= }}

-	~~Authors~~: ~~Yang, I.S., Kim, T.G., Park, B.S., Kim, K.H.~~	+	===Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding===

-	Description: Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 17 09~~:10:38 2010''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20529698}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20529698 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20529698}}
		+
		+	==About this Structure==
		+	3LDM is a 5 chains structure with sequences from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDM OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20529698</ref><references group="xtra"/>
		+	[[Category: Bos taurus]]
		+	[[Category: Kim, K H.]]
		+	[[Category: Kim, T G.]]
		+	[[Category: Park, B S.]]
		+	[[Category: Yang, I S.]]
		+	[[Category: Aprotinin]]
		+	[[Category: Hydrolase inhibitor]]
		+	[[Category: Sucrose octasulfate]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:50:08 2010''

OCA at 07:10, 17 March 2010

2010-03-17T07:10:38Z

←Older revision		Revision as of 07:10, 17 March 2010
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Yang, I.S., Kim, T.G., Park, B.S., Kim, K.H.		Authors: Yang, I.S., Kim, T.G., Park, B.S., Kim, K.H.
Line 7:		Line 7:
	Description: Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding		Description: Crystal structure of aprotinin in complex with sucrose octasulfate: unusual interactions and implication for heparin binding

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jan 27 19~~:18:11 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 17 09:10:38 2010''