1kwy - Revision history

OCA at 08:04, 3 April 2024

OCA — Wed, 03 Apr 2024 08:04:32 GMT

←Older revision		Revision as of 08:04, 3 April 2024
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	<StructureSection load='1kwy' size='340' side='right'caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1kwy' size='340' side='right'caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1KWY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KWY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]~~</~~div~~><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=PRD_900112:3alpha-alpha-mannobiose'>PRD_900112</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [https://pdbe.org/1kwy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [https://www.ebi.ac.uk/pdbsum/1kwy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kwy 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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [~~http~~://pdbe.org/1kwy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1kwy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1kwy ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MBL1_RAT MBL1_RAT]] Calcium-dependent lectin involved in innate immune defense. Binds mannose, fucose and N-acetylglucosamine on different microorganisms and activates the lectin complement pathway. Binds to late apoptotic cells, as well as to apoptotic blebs and to necrotic cells, but not to early apoptotic cells, facilitating their uptake by macrophages (By similarity).	+	[https://www.uniprot.org/uniprot/MBL1_RAT MBL1_RAT] Calcium-dependent lectin involved in innate immune defense. Binds mannose, fucose and N-acetylglucosamine on different microorganisms and activates the lectin complement pathway. Binds to late apoptotic cells, as well as to apoptotic blebs and to necrotic cells, but not to early apoptotic cells, facilitating their uptake by macrophages (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1kwy 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=1kwy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Mannose-binding proteins (MBPs) are C-type animal lectins that recognize high mannose oligosaccharides on pathogenic cell surfaces. MBPs bind to their carbohydrate ligands by forming a series of Ca(2+) coordination and hydrogen bonds with two hydroxyl groups equivalent to the 3- and 4-OH of mannose. In this work, the determinants of the orientation of sugars bound to rat serum and liver MBPs (MBP-A and MBP-C) have been systematically investigated. The crystal structures of MBP-A soaked with monosaccharides and disaccharides and also the structure of the MBP-A trimer cross-linked by a high mannose asparaginyl oligosaccharide reveal that monosaccharides or alpha1-6-linked mannose bind to MBP-A in one orientation, whereas alpha1-2- or alpha1-3-linked mannose binds in an orientation rotated 180 degrees around a local symmetry axis relating the 3- and 4-OH groups. In contrast, a similar set of ligands all bind to MBP-C in a single orientation. The mutation of MBP-A His(189) to its MBP-C equivalent, valine, causes Man alpha 1-3Man to bind in a mixture of orientations. These data combined with modeling indicate that the residue at this position influences the orientation of bound ligands in MBP. We propose that the control of binding orientation can influence the recognition of multivalent ligands. A lateral association of trimers in the cross-linked crystals may reflect interactions within higher oligomers of MBP-A that are stabilized by multivalent ligands.
-
-	Orientation of bound ligands in mannose-binding proteins. Implications for multivalent ligand recognition.,Ng KK, Kolatkar AR, Park-Snyder S, Feinberg H, Clark DA, Drickamer K, Weis WI J Biol Chem. 2002 May 3;277(18):16088-95. Epub 2002 Feb 15. PMID:11850428<ref>PMID:11850428</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1kwy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Mannose-binding protein\|Mannose-binding protein]]		*[[Mannose-binding protein\|Mannose-binding protein]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Clark~~, D A~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: Drickamer, K]]	+	[[Category: Clark DA]]
-	[[Category: Feinberg, H]]	+	[[Category: Drickamer K]]
-	[[Category: Kolatkar~~, A R~~]]	+	[[Category: Feinberg H]]
-	[[Category: Ng~~, K K~~]]	+	[[Category: Kolatkar AR]]
-	[[Category: Park-Snyder, S]]	+	[[Category: Ng KK]]
-	[[Category: Weis~~, W I]]~~	+	[[Category: Park-Snyder S]]
-	~~[[Category: C-type lectin]]~~	+	[[Category: Weis WI]]
-	~~[[Category: Calcium-binding protein]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 07:51, 25 November 2020

OCA — Wed, 25 Nov 2020 07:51:30 GMT

←Older revision		Revision as of 07:51, 25 November 2020
Line 1:		Line 1:

	==Rat mannose protein A complexed with man-a13-man.==		==Rat mannose protein A complexed with man-a13-man.==
-	<StructureSection load='1kwy' size='340' side='right' caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='1kwy' size='340' side='right'caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1KWY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1KWY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://pdbe.org/1kwy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kwy 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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://pdbe.org/1kwy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kwy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 1kwy" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1kwy" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Mannose-binding protein\|Mannose-binding protein]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Clark, D A]]		[[Category: Clark, D A]]
	[[Category: Drickamer, K]]		[[Category: Drickamer, K]]

OCA at 21:51, 24 January 2018

OCA — Wed, 24 Jan 2018 21:51:46 GMT

←Older revision		Revision as of 21:51, 24 January 2018
Line 1:		Line 1:
		+
	==Rat mannose protein A complexed with man-a13-man.==		==Rat mannose protein A complexed with man-a13-man.==
	<StructureSection load='1kwy' size='340' side='right' caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1kwy' size='340' side='right' caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://pdbe.org/1kwy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy 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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://pdbe.org/1kwy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kwy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kw/1kwy_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kw/1kwy_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>
Line 29:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1kwy" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1kwy" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Mannose-binding protein\|Mannose-binding protein]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:22, 8 February 2016

OCA — Mon, 08 Feb 2016 12:22:01 GMT

←Older revision		Revision as of 12:22, 8 February 2016
Line 18:		Line 18:
	<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=1kwy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:31, 10 September 2015

OCA — Thu, 10 Sep 2015 11:31:39 GMT

←Older revision		Revision as of 11:31, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1kwy' size='340' side='right' caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1kwy' size='340' side='right' caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KWY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KWY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy 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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://pdbe.org/1kwy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MBL1_RAT MBL1_RAT]] Calcium-dependent lectin involved in innate immune defense. Binds mannose, fucose and N-acetylglucosamine on different microorganisms and activates the lectin complement pathway. Binds to late apoptotic cells, as well as to apoptotic blebs and to necrotic cells, but not to early apoptotic cells, facilitating their uptake by macrophages (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 26:		Line 28:
	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 1kwy" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Clark, D A]]		[[Category: Clark, D A]]
	[[Category: Drickamer, K]]		[[Category: Drickamer, K]]

OCA at 17:13, 5 January 2015

OCA — Mon, 05 Jan 2015 17:13:04 GMT

←Older revision		Revision as of 17:13, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KWY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KWY FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy 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=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Clark, D A.]]	+	[[Category: Clark, D A]]
-	[[Category: Drickamer, K.]]	+	[[Category: Drickamer, K]]
-	[[Category: Feinberg, H.]]	+	[[Category: Feinberg, H]]
-	[[Category: Kolatkar, A R.]]	+	[[Category: Kolatkar, A R]]
-	[[Category: Ng, K K.]]	+	[[Category: Ng, K K]]
-	[[Category: Park-Snyder, S.]]	+	[[Category: Park-Snyder, S]]
-	[[Category: Weis, W I.]]	+	[[Category: Weis, W I]]
	[[Category: C-type lectin]]		[[Category: C-type lectin]]
	[[Category: Calcium-binding protein]]		[[Category: Calcium-binding protein]]

OCA at 14:09, 28 September 2014

OCA — Sun, 28 Sep 2014 14:09:53 GMT

←Older revision		Revision as of 14:09, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1kwy.~~png~~\|~~left~~\|200px]]	+	==Rat mannose protein A complexed with man-a13-man.==
		+	<StructureSection load='1kwy' size='340' side='right' caption='[[1kwy]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KWY FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kwt\|1kwt]], [[1kwu\|1kwu]], [[1kwv\|1kwv]], [[1kww\|1kww]], [[1kwx\|1kwx]], [[1kwz\|1kwz]], [[1kx0\|1kx0]], [[1kx1\|1kx1]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MBL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kwy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kwy RCSB], [http://www.ebi.ac.uk/pdbsum/1kwy 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/kw/1kwy_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 ==
		+	Mannose-binding proteins (MBPs) are C-type animal lectins that recognize high mannose oligosaccharides on pathogenic cell surfaces. MBPs bind to their carbohydrate ligands by forming a series of Ca(2+) coordination and hydrogen bonds with two hydroxyl groups equivalent to the 3- and 4-OH of mannose. In this work, the determinants of the orientation of sugars bound to rat serum and liver MBPs (MBP-A and MBP-C) have been systematically investigated. The crystal structures of MBP-A soaked with monosaccharides and disaccharides and also the structure of the MBP-A trimer cross-linked by a high mannose asparaginyl oligosaccharide reveal that monosaccharides or alpha1-6-linked mannose bind to MBP-A in one orientation, whereas alpha1-2- or alpha1-3-linked mannose binds in an orientation rotated 180 degrees around a local symmetry axis relating the 3- and 4-OH groups. In contrast, a similar set of ligands all bind to MBP-C in a single orientation. The mutation of MBP-A His(189) to its MBP-C equivalent, valine, causes Man alpha 1-3Man to bind in a mixture of orientations. These data combined with modeling indicate that the residue at this position influences the orientation of bound ligands in MBP. We propose that the control of binding orientation can influence the recognition of multivalent ligands. A lateral association of trimers in the cross-linked crystals may reflect interactions within higher oligomers of MBP-A that are stabilized by multivalent ligands.

-	~~{{STRUCTURE_1kwy\| PDB=1kwy \| SCENE= }}~~	+	Orientation of bound ligands in mannose-binding proteins. Implications for multivalent ligand recognition.,Ng KK, Kolatkar AR, Park-Snyder S, Feinberg H, Clark DA, Drickamer K, Weis WI J Biol Chem. 2002 May 3;277(18):16088-95. Epub 2002 Feb 15. PMID:11850428<ref>PMID:11850428</ref>

-	~~===Rat mannose protein A complexed with man-a13-man.===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11850428}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1kwy]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rattus_norvegicus Rattus norvegicus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA].~~	+

	==See Also==		==See Also==
	*[[Mannose-binding protein\|Mannose-binding protein]]		*[[Mannose-binding protein\|Mannose-binding protein]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:011850428<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Clark, D A.]]		[[Category: Clark, D A.]]

OCA at 10:07, 20 October 2012

OCA — Sat, 20 Oct 2012 10:07:23 GMT

←Older revision		Revision as of 10:07, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1kwy]] is a 3 chain structure ~~of [[Mannose-binding protein]]~~ with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA].	+	[[1kwy]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA].

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

OCA: Protected "1kwy" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 01:03:14 GMT

Protected "1kwy" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:03, 26 July 2012

OCA at 01:03, 26 July 2012

OCA — Thu, 26 Jul 2012 01:03:13 GMT

←Older revision		Revision as of 01:03, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1kwy.png\|left\|200px]]		[[Image:1kwy.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1kwy", 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_1kwy\| PDB=1kwy \| SCENE= }}		{{STRUCTURE_1kwy\| PDB=1kwy \| SCENE= }}

	===Rat mannose protein A complexed with man-a13-man.===		===Rat mannose protein A complexed with man-a13-man.===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11850428}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 11850428 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_11850428}}		{{ABSTRACT_PUBMED_11850428}}

	==About this Structure==		==About this Structure==
-	~~1KWY~~ is a 3 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA].	+	[[1kwy]] is a 3 chain structure of [[Mannose-binding protein]] with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KWY OCA].
		+
		+	==See Also==
		+	*[[Mannose-binding protein\|Mannose-binding protein]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~11850428~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:011850428</ref><references group="xtra"/>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Clark, D A.]]		[[Category: Clark, D A.]]
Line 34:		Line 25:
	[[Category: C-type lectin]]		[[Category: C-type lectin]]
	[[Category: Calcium-binding protein]]		[[Category: Calcium-binding protein]]
		+	[[Category: Immune system]]
	[[Category: Lectin]]		[[Category: Lectin]]
-		+	[[Category: Sugar binding protein]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Feb 16 21:58:01 2009''~~	+