4ay1 - Revision history

OCA at 05:50, 25 August 2022

2022-08-25T05:50:22Z

←Older revision		Revision as of 05:50, 25 August 2022
Line 3:		Line 3:
	<StructureSection load='4ay1' size='340' side='right'caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='4ay1' size='340' side='right'caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Human Human]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [~~http~~://pdbe.org/4ay1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ay1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ay1 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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [https://pdbe.org/4ay1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [https://www.ebi.ac.uk/pdbsum/4ay1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ay1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CH3L2_HUMAN CH3L2_HUMAN]] Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin. Has no chitinase activity.<ref>PMID:22742450</ref>	+	[[https://www.uniprot.org/uniprot/CH3L2_HUMAN CH3L2_HUMAN]] Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin. Has no chitinase activity.<ref>PMID:22742450</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Aalten, D M.F van]]		[[Category: Aalten, D M.F van]]

OCA at 16:40, 29 January 2020

2020-01-29T16:40:03Z

←Older revision		Revision as of 16:40, 29 January 2020
Line 1:		Line 1:
-	~~{{Large structure}}~~	+
	==Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties==		==Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties==
-	<StructureSection load='4ay1' size='340' side='right' caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='4ay1' size='340' side='right'caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>
Line 7:		Line 7:
	<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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [http://pdbe.org/4ay1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [http://www.ebi.ac.uk/pdbsum/4ay1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ay1 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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [http://pdbe.org/4ay1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [http://www.ebi.ac.uk/pdbsum/4ay1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ay1 ProSAT]</span></td></tr>
	</table>		</table>
-	{{Large structure}}
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/CH3L2_HUMAN CH3L2_HUMAN]] Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin. Has no chitinase activity.<ref>PMID:22742450</ref>		[[http://www.uniprot.org/uniprot/CH3L2_HUMAN CH3L2_HUMAN]] Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin. Has no chitinase activity.<ref>PMID:22742450</ref>
Line 21:		Line 20:

	==See Also==		==See Also==
-	*[[Chitinase-3-like protein\|Chitinase-3-like protein]]	+	*[[Chitinase-3-like protein 3D structures\|Chitinase-3-like protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Aalten, D M.F van]]		[[Category: Aalten, D M.F van]]
	[[Category: Betou, M]]		[[Category: Betou, M]]

OCA at 14:02, 11 April 2018

2018-04-11T14:02:32Z

←Older revision		Revision as of 14:02, 11 April 2018
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 4ay1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4ay1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Chitinase-3-like protein\|Chitinase-3-like protein]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
-	[[Category: Aalten, D M.F ~~Van~~]]	+	[[Category: Aalten, D M.F van]]
	[[Category: Betou, M]]		[[Category: Betou, M]]
	[[Category: Eggleston, I M]]		[[Category: Eggleston, I M]]

OCA at 08:35, 4 August 2016

2016-08-04T08:35:50Z

←Older revision		Revision as of 08:35, 4 August 2016
Line 1:		Line 1:
		+	{{Large structure}}
	==Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties==		==Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties==
	<StructureSection load='4ay1' size='340' side='right' caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='4ay1' size='340' side='right' caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [http://www.ebi.ac.uk/pdbsum/4ay1 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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [http://pdbe.org/4ay1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [http://www.ebi.ac.uk/pdbsum/4ay1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ay1 ProSAT]</span></td></tr>
	</table>		</table>
		+	{{Large structure}}
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CH3L2_HUMAN CH3L2_HUMAN]] Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin. Has no chitinase activity.<ref>PMID:22742450</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 18:
	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 4ay1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Aalten, D M.F Van]]		[[Category: Aalten, D M.F Van]]
	[[Category: Betou, M]]		[[Category: Betou, M]]

OCA at 08:22, 18 December 2014

2014-12-18T08:22:22Z

←Older revision		Revision as of 08:22, 18 December 2014
Line 1:		Line 1:
-	~~{{Large structure}}~~	+	==Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties==
-	~~{{STRUCTURE_4ay1~~\| ~~PDB~~=4ay1 \| ~~SCENE~~= }}	+	<StructureSection load='4ay1' size='340' side='right' caption='[[4ay1]], [[Resolution\|resolution]] 1.95Å' scene=''>
-	===~~Human~~ YKL-39 is a pseudo-chitinase with ~~retained chitooligosaccharide~~ binding properties~~===~~	+	== Structural highlights ==
-	~~{{ABSTRACT_PUBMED_22742450}}~~	+	<table><tr><td colspan='2'>[[4ay1]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4AY1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></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=4ay1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ay1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ay1 RCSB], [http://www.ebi.ac.uk/pdbsum/4ay1 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The chitinase-like proteins YKL-39 (chitinase 3-like-2) and YKL-40 (chitinase 3-like-1) are highly expressed in a number of human cells independent of their origin (mesenchymal, epithelial or haemapoietic). Elevated serum levels of YKL-40 have been associated with a negative outcome in a number of diseases ranging from cancer to inflammation and asthma. YKL-39 expression has been associated with osteoarthritis. However, despite the reported association with disease, the physiological or pathological role of these proteins is still very poorly understood. Although YKL-39 is homologous to the two family 18 chitinases in the human genome, it has been reported to lack any chitinase activity. In the present study, we show that human YKL-39 possesses a chitinase-like fold, but lacks key active-site residues required for catalysis. A glycan screen identified oligomers of N-acetylglucosamine as preferred binding partners. YKL-39 binds chitooligosaccharides and a newly synthesized derivative of the bisdionin chitinase-inhibitor class with micromolar affinity, through a number of conserved tryptophan residues. Strikingly, the chitinase activity of YKL-39 was recovered by reverting two non-conservative substitutions in the active site to those found in the active enzymes, suggesting that YKL-39 is a pseudo-chitinase with retention of chitinase-like ligand-binding properties.

-	~~==About this Structure==~~	+	Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide-binding properties.,Schimpl M, Rush CL, Betou M, Eggleston IM, Recklies AD, van Aalten DM Biochem J. 2012 Aug 15;446(1):149-57. PMID:22742450<ref>PMID:22742450</ref>
-	~~[[4ay1]]~~ is a ~~12 chain structure~~ with ~~sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	<~~ref group="xtra">PMID:022742450<~~/~~ref~~><~~references group="xtra"~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Aalten, D M.F Van.]]	+	[[Category: Aalten, D M.F Van]]
-	[[Category: Betou, M.]]	+	[[Category: Betou, M]]
-	[[Category: Eggleston, I M.]]	+	[[Category: Eggleston, I M]]
-	[[Category: Penman, G A.]]	+	[[Category: Penman, G A]]
-	[[Category: Recklies, A D.]]	+	[[Category: Recklies, A D]]
-	[[Category: Rush, C L.]]	+	[[Category: Rush, C L]]
-	[[Category: Schimpl, M.]]	+	[[Category: Schimpl, M]]
	[[Category: Chilectin]]		[[Category: Chilectin]]
	[[Category: Chitooligosaccharide]]		[[Category: Chitooligosaccharide]]

OCA at 07:43, 11 March 2013

2013-03-11T07:43:39Z

←Older revision		Revision as of 07:43, 11 March 2013
Line 1:		Line 1:
-	~~[[Image:4ay1.jpg\|left\|200px]]~~	+	{{Large structure}}
-		+
	{{STRUCTURE_4ay1\| PDB=4ay1 \| SCENE= }}		{{STRUCTURE_4ay1\| PDB=4ay1 \| SCENE= }}
-
	===Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties===		===Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties===
-
	{{ABSTRACT_PUBMED_22742450}}		{{ABSTRACT_PUBMED_22742450}}

OCA at 05:19, 8 August 2012

2012-08-08T05:19:31Z

←Older revision		Revision as of 05:19, 8 August 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4ay1.jpg\|left\|200px]]

-	~~The entry~~ 4ay1 ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4ay1\| PDB=4ay1 \| SCENE= }}

-	~~Authors: Schimpl, M., Rush, C.L., Betou, M., Eggleston, I.M., Penman, G.A., Recklies, A.D., van Aalten, D.M.F.~~	+	===Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties===

-	~~Description: Human YKL-39~~ is a ~~pseudo-chitinase~~ with ~~retained chitooligosaccharide binding properties~~	+	{{ABSTRACT_PUBMED_22742450}}
		+
		+	==About this Structure==
		+	[[4ay1]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AY1 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022742450</ref><references group="xtra"/>
		+	[[Category: Homo sapiens]]
		+	[[Category: Aalten, D M.F Van.]]
		+	[[Category: Betou, M.]]
		+	[[Category: Eggleston, I M.]]
		+	[[Category: Penman, G A.]]
		+	[[Category: Recklies, A D.]]
		+	[[Category: Rush, C L.]]
		+	[[Category: Schimpl, M.]]
		+	[[Category: Chilectin]]
		+	[[Category: Chitooligosaccharide]]
		+	[[Category: Hydrolase]]
		+	[[Category: Lectin]]
		+	[[Category: Pseudochitinase]]

OCA at 07:40, 11 July 2012

2012-07-11T07:40:29Z

←Older revision		Revision as of 07:40, 11 July 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4ay1 is ON HOLD	+	The entry 4ay1 is ON HOLD until Paper Publication

	Authors: Schimpl, M., Rush, C.L., Betou, M., Eggleston, I.M., Penman, G.A., Recklies, A.D., van Aalten, D.M.F.		Authors: Schimpl, M., Rush, C.L., Betou, M., Eggleston, I.M., Penman, G.A., Recklies, A.D., van Aalten, D.M.F.

	Description: Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties		Description: Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties

OCA: Protected "4ay1" [edit=sysop:move=sysop]

2012-06-27T05:15:57Z

Protected "4ay1" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:15, 27 June 2012

OCA: New page: '''Unreleased structure''' The entry 4ay1 is ON HOLD Authors: Schimpl, M., Rush, C.L., Betou, M., Eggleston, I.M., Penman, G.A., Recklies, A.D., van Aalten, D.M.F. Description: Human Y...

2012-06-27T05:15:56Z

New page: '''Unreleased structure''' The entry 4ay1 is ON HOLD Authors: Schimpl, M., Rush, C.L., Betou, M., Eggleston, I.M., Penman, G.A., Recklies, A.D., van Aalten, D.M.F. Description: Human Y...

New page

'''Unreleased structure'''

The entry 4ay1 is ON HOLD

Authors: Schimpl, M., Rush, C.L., Betou, M., Eggleston, I.M., Penman, G.A., Recklies, A.D., van Aalten, D.M.F.

Description: Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide binding properties