6py1 - Revision history

OCA at 07:37, 11 October 2023

OCA — Wed, 11 Oct 2023 07:37:53 GMT

←Older revision		Revision as of 07:37, 11 October 2023
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	<StructureSection load='6py1' size='340' side='right'caption='[[6py1]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6py1' size='340' side='right'caption='[[6py1]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6py1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PY1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6py1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PY1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 1.701Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CLEC10A, CLECSF13, CLECSF14, HML ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=6py1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6py1 OCA], [https://pdbe.org/6py1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6py1 RCSB], [https://www.ebi.ac.uk/pdbsum/6py1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6py1 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=6py1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6py1 OCA], [https://pdbe.org/6py1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6py1 RCSB], [https://www.ebi.ac.uk/pdbsum/6py1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6py1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CLC10_HUMAN CLC10_HUMAN]] Probable role in regulating adaptive and innate immune responses. Binds in a calcium-dependent manner to terminal galactose and N-acetylgalactosamine units, linked to serine or threonine. These sugar moieties are known as Tn-Ag and are expressed in a variety of carcinoma cells.<ref>PMID:8598452</ref>	+	[https://www.uniprot.org/uniprot/CLC10_HUMAN CLC10_HUMAN] Probable role in regulating adaptive and innate immune responses. Binds in a calcium-dependent manner to terminal galactose and N-acetylgalactosamine units, linked to serine or threonine. These sugar moieties are known as Tn-Ag and are expressed in a variety of carcinoma cells.<ref>PMID:8598452</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Birrane, G]]	+	[[Category: Birrane G]]
-	[[Category: Gabba, A]]	+	[[Category: Gabba A]]
-	[[Category: Luz~~, J G~~]]	+	[[Category: Luz JG]]
-	[[Category: Murphy~~, P V]]~~	+	[[Category: Murphy PV]]
-	~~[[Category: Crd]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 10:41, 31 March 2021

OCA — Wed, 31 Mar 2021 10:41:08 GMT

←Older revision		Revision as of 10:41, 31 March 2021
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-	==Structure of the ~~CRD~~ of ~~CLEC10A~~==	+	==Crystal Structure of the Carbohydrate Recognition Domain of the Human Macrophage Galactose C-Type Lectin Bound to GalNAc==
-	<StructureSection load='6py1' size='340' side='right'caption='[[6py1]]' scene=''>	+	<StructureSection load='6py1' size='340' side='right'caption='[[6py1]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PY1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6PY1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6py1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PY1 FirstGlance]. <br>
-	</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=6py1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6py1 OCA], [~~http~~://pdbe.org/6py1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6py1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6py1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6py1 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CLEC10A, CLECSF13, CLECSF14, HML ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=6py1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6py1 OCA], [https://pdbe.org/6py1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6py1 RCSB], [https://www.ebi.ac.uk/pdbsum/6py1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6py1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/CLC10_HUMAN CLC10_HUMAN]] Probable role in regulating adaptive and innate immune responses. Binds in a calcium-dependent manner to terminal galactose and N-acetylgalactosamine units, linked to serine or threonine. These sugar moieties are known as Tn-Ag and are expressed in a variety of carcinoma cells.<ref>PMID:8598452</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The human macrophage galactose lectin (MGL) is an endocytic type II transmembrane receptor expressed on immature monocyte-derived dendritic cells and activated macrophages and plays a role in modulating the immune system in response to infections and cancer. MGL contains an extracellular calcium-dependent (C-type) carbohydrate recognition domain (CRD) that specifically binds terminal N-acetylgalactosamine glycan residues such as the Tn and sialyl-Tn antigens found on tumor cells, as well as other N- and O-glycans displayed on certain viruses and parasites. Even though the glycan specificity of MGL is known and several binding glycoproteins have been identified, the molecular basis for substrate recognition has remained elusive due to the lack of high-resolution structures. Here we present crystal structures of the MGL CRD at near endosomal pH and in several complexes, which reveal details of the interactions with the natural ligand, GalNAc, the cancer-associated Tn-Ser antigen, and a synthetic GalNAc mimetic ligand. Like the asialoglycoprotein receptor, additional calcium atoms are present and contribute to stabilization of the MGL CRD fold. The structure provides the molecular basis for preferential binding of N-acetylgalactosamine over galactose and prompted the re-evaluation of the binding modes previously proposed in solution. Saturation transfer difference nuclear magnetic resonance data acquired using the MGL CRD and interpreted using the crystal structure indicate a single binding mode for GalNAc in solution. Models of MGL1 and MGL2, the mouse homologues of MGL, explain how these proteins might recognize Lewis(X) and GalNAc, respectively.
		+
		+	Crystal Structure of the Carbohydrate Recognition Domain of the Human Macrophage Galactose C-Type Lectin Bound to GalNAc and the Tumor-Associated Tn Antigen.,Gabba A, Bogucka A, Luz JG, Diniz A, Coelho H, Corzana F, Canada FJ, Marcelo F, Murphy PV, Birrane G Biochemistry. 2021 Mar 16. doi: 10.1021/acs.biochem.1c00009. PMID:33724805<ref>PMID:33724805</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6py1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Birrane G]]	+	[[Category: Birrane, G]]
-	[[Category: Gabba A]]	+	[[Category: Gabba, A]]
-	[[Category: Luz JG]]	+	[[Category: Luz, J G]]
-	[[Category: Murphy PV]]	+	[[Category: Murphy, P V]]
		+	[[Category: Crd]]
		+	[[Category: Signaling protein]]

OCA at 11:07, 29 July 2020

OCA — Wed, 29 Jul 2020 11:07:58 GMT

←Older revision		Revision as of 11:07, 29 July 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6py1 ~~is ON HOLD until Paper Publication~~	+	==Structure of the CRD of CLEC10A==
-		+	<StructureSection load='6py1' size='340' side='right'caption='[[6py1]]' scene=''>
-	~~Authors~~: ~~Birrane~~, G., ~~Murphy~~, P.V., ~~Gabba, A~~., ~~Luz, J~~.G.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PY1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6PY1 FirstGlance]. <br>
-	~~Description: Structure of the CRD of CLEC10A~~	+	</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=6py1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6py1 OCA], [http://pdbe.org/6py1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6py1 RCSB], [http://www.ebi.ac.uk/pdbsum/6py1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6py1 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Murphy, P.V~~]]	+	__TOC__
-	[[Category: ~~Luz, J.G~~]]	+	</StructureSection>
-	[[Category: ~~Birrane, G~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Gabba, A~~]]	+	[[Category: Birrane G]]
		+	[[Category: Gabba A]]
		+	[[Category: Luz JG]]
		+	[[Category: Murphy PV]]

OCA at 07:15, 2 October 2019

OCA — Wed, 02 Oct 2019 07:15:44 GMT

←Older revision		Revision as of 07:15, 2 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6py1 is ON HOLD	+	The entry 6py1 is ON HOLD until Paper Publication

	Authors: Birrane, G., Murphy, P.V., Gabba, A., Luz, J.G.		Authors: Birrane, G., Murphy, P.V., Gabba, A., Luz, J.G.
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	Description: Structure of the CRD of CLEC10A		Description: Structure of the CRD of CLEC10A
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Luz, J.G]]
	[[Category: Murphy, P.V]]		[[Category: Murphy, P.V]]
		+	[[Category: Luz, J.G]]
	[[Category: Birrane, G]]		[[Category: Birrane, G]]
	[[Category: Gabba, A]]		[[Category: Gabba, A]]

OCA: Protected "6py1" [edit=sysop:move=sysop]

OCA — Wed, 07 Aug 2019 04:18:45 GMT

Protected "6py1" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:18, 7 August 2019

OCA: New page: '''Unreleased structure''' The entry 6py1 is ON HOLD Authors: Birrane, G., Murphy, P.V., Gabba, A., Luz, J.G. Description: Structure of the CRD of CLEC10A [[Category: Unreleased Struct...

OCA — Wed, 07 Aug 2019 04:18:44 GMT

New page: '''Unreleased structure''' The entry 6py1 is ON HOLD Authors: Birrane, G., Murphy, P.V., Gabba, A., Luz, J.G. Description: Structure of the CRD of CLEC10A [[Category: Unreleased Struct...

New page

'''Unreleased structure'''

The entry 6py1 is ON HOLD

Authors: Birrane, G., Murphy, P.V., Gabba, A., Luz, J.G.

Description: Structure of the CRD of CLEC10A
[[Category: Unreleased Structures]]
[[Category: Luz, J.G]]
[[Category: Murphy, P.V]]
[[Category: Birrane, G]]
[[Category: Gabba, A]]