4igy - Revision history

OCA at 15:22, 20 September 2023

OCA — Wed, 20 Sep 2023 15:22:43 GMT

←Older revision		Revision as of 15:22, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IGY FirstGlance]. <br>		<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IGY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~, ~~<scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</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]] 2.92Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[4igv\|4igv]]~~, ~~[[4igw\|4igw]], [[4igx\|4igx]], [[4ih0\|4ih0]], [[4ih2\|4ih2]], [[4ihr\|4ihr]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [https://pdbe.org/4igy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [https://www.ebi.ac.uk/pdbsum/4igy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4igy 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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [https://pdbe.org/4igy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [https://www.ebi.ac.uk/pdbsum/4igy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4igy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/KIRO_ACTDE KIRO_ACTDE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: Actinidia deliciosa]]		[[Category: Actinidia deliciosa]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chruszcz, M]]	+	[[Category: Chruszcz M]]
-	[[Category: Ciardiello~~, M A~~]]	+	[[Category: Ciardiello MA]]
-	[[Category: Giangrieco, I]]	+	[[Category: Giangrieco I]]
-	[[Category: Minor, W]]	+	[[Category: Minor W]]
-	[[Category: Osinski, T]]	+	[[Category: Osinski T]]
-	~~[[Category: Allergen]]~~	+
-	~~[[Category: Mlp/rrp family]]~~	+
-	~~[[Category: Pr-10 related~~]]	+

OCA at 10:02, 13 April 2022

OCA — Wed, 13 Apr 2022 10:02:12 GMT

←Older revision		Revision as of 10:02, 13 April 2022
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	<StructureSection load='4igy' size='340' side='right'caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>		<StructureSection load='4igy' size='340' side='right'caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4IGY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IGY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4igv\|4igv]], [[4igw\|4igw]], [[4igx\|4igx]], [[4ih0\|4ih0]], [[4ih2\|4ih2]], [[4ihr\|4ihr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4igv\|4igv]], [[4igw\|4igw]], [[4igx\|4igx]], [[4ih0\|4ih0]], [[4ih2\|4ih2]], [[4ihr\|4ihr]]</div></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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [~~http~~://pdbe.org/4igy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4igy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4igy 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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [https://pdbe.org/4igy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [https://www.ebi.ac.uk/pdbsum/4igy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4igy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:21, 27 March 2019

OCA — Wed, 27 Mar 2019 08:21:20 GMT

←Older revision		Revision as of 08:21, 27 March 2019
Line 1:		Line 1:

	==Crystal structure of kirola (Act d 11) - triclinic form==		==Crystal structure of kirola (Act d 11) - triclinic form==
-	<StructureSection load='4igy' size='340' side='right' caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>	+	<StructureSection load='4igy' size='340' side='right'caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IGY FirstGlance]. <br>		<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IGY FirstGlance]. <br>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Actinidia deliciosa]]		[[Category: Actinidia deliciosa]]
		+	[[Category: Large Structures]]
	[[Category: Chruszcz, M]]		[[Category: Chruszcz, M]]
	[[Category: Ciardiello, M A]]		[[Category: Ciardiello, M A]]

OCA at 15:30, 5 August 2016

OCA — Fri, 05 Aug 2016 15:30:55 GMT

←Older revision		Revision as of 15:30, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of kirola (Act d 11) - triclinic form==		==Crystal structure of kirola (Act d 11) - triclinic form==
	<StructureSection load='4igy' size='340' side='right' caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>		<StructureSection load='4igy' size='340' side='right' caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4igv\|4igv]], [[4igw\|4igw]], [[4igx\|4igx]], [[4ih0\|4ih0]], [[4ih2\|4ih2]], [[4ihr\|4ihr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4igv\|4igv]], [[4igw\|4igw]], [[4igx\|4igx]], [[4ih0\|4ih0]], [[4ih2\|4ih2]], [[4ihr\|4ihr]]</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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [http://www.ebi.ac.uk/pdbsum/4igy 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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [http://pdbe.org/4igy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [http://www.ebi.ac.uk/pdbsum/4igy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4igy 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 4igy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:08, 21 December 2014

OCA — Sun, 21 Dec 2014 13:08:38 GMT

←Older revision		Revision as of 13:08, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4igy\| PDB=4igy \| SCENE= }}~~	+	==Crystal structure of kirola (Act d 11) - triclinic form==
-	===Crystal structure of kirola (Act d 11) - triclinic form===	+	<StructureSection load='4igy' size='340' side='right' caption='[[4igy]], [[Resolution\|resolution]] 2.92Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23969108}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4igy]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IGY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNL:UNKNOWN+LIGAND'>UNL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4igv\|4igv]], [[4igw\|4igw]], [[4igx\|4igx]], [[4ih0\|4ih0]], [[4ih2\|4ih2]], [[4ihr\|4ihr]]</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=4igy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4igy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4igy RCSB], [http://www.ebi.ac.uk/pdbsum/4igy PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The allergen Act d 11, also known as kirola, is a 17kDa protein expressed in large amounts in ripe green and yellow-fleshed kiwifruit. Ten percent of all kiwifruit-allergic individuals produce IgE specific for the protein. Using X-ray crystallography, we determined the first three-dimensional structures of Act d 11, produced from both recombinant expression in Escherichia coli and from the natural source (kiwifruit). While Act d 11 is immunologically correlated with the birch pollen allergen Bet v 1 and other members of the pathogenesis-related protein family 10 (PR-10), it has low sequence similarity to PR-10 proteins. By sequence Act d 11 appears instead to belong to the major latex/ripening-related (MLP/RRP) family, but analysis of the crystal structures shows that Act d 11 has a fold very similar to that of Bet v 1 and other PR-10 related allergens regardless of the low sequence identity. The structures of both the natural and recombinant protein include an unidentified ligand, which is relatively small (about 250Da by mass spectrometry experiments) and most likely contains an aromatic ring. The ligand-binding cavity in Act d 11 is also significantly smaller than those in PR-10 proteins. The binding of the ligand, which we were not able to unambiguously identify, results in conformational changes in the protein that may have physiological and immunological implications. Interestingly, the residue corresponding to Glu45 in Bet v 1 (Glu46), which is important for IgE binding to the birch pollen allergen, is conserved in Act d 11, even though it is not in other allergens with significantly higher sequence identity to Bet v 1. We suggest that the so-called Gly-rich loop (or P-loop), which is conserved in all PR-10 allergens, may be responsible for IgE cross-reactivity between Bet v 1 and Act d 11.

-	~~==About this Structure==~~	+	Structural and bioinformatic analysis of the kiwifruit allergen Act d 11, a member of the family of ripening-related proteins.,Chruszcz M, Ciardiello MA, Osinski T, Majorek KA, Giangrieco I, Font J, Breiteneder H, Thalassinos K, Minor W Mol Immunol. 2013 Aug 19;56(4):794-803. doi: 10.1016/j.molimm.2013.07.004. PMID:23969108<ref>PMID:23969108</ref>
-	~~[[4igy]] is~~ a 4 ~~chain structure with sequence from [http~~:~~//en~~.~~wikipedia~~.~~org~~/~~wiki/Actinidia_deliciosa Actinidia deliciosa]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4IGY OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023969108</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Actinidia deliciosa]]		[[Category: Actinidia deliciosa]]
-	[[Category: Chruszcz, M.]]	+	[[Category: Chruszcz, M]]
-	[[Category: Ciardiello, M A.]]	+	[[Category: Ciardiello, M A]]
-	[[Category: Giangrieco, I.]]	+	[[Category: Giangrieco, I]]
-	[[Category: Minor, W.]]	+	[[Category: Minor, W]]
-	[[Category: Osinski, T.]]	+	[[Category: Osinski, T]]
	[[Category: Allergen]]		[[Category: Allergen]]
	[[Category: Mlp/rrp family]]		[[Category: Mlp/rrp family]]
	[[Category: Pr-10 related]]		[[Category: Pr-10 related]]

OCA at 10:47, 4 September 2013

OCA — Wed, 04 Sep 2013 10:47:48 GMT

←Older revision		Revision as of 10:47, 4 September 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4igy\| PDB=4igy \| SCENE= }}
		+	===Crystal structure of kirola (Act d 11) - triclinic form===
		+	{{ABSTRACT_PUBMED_23969108}}

-	~~The entry~~ 4igy is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4igy]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actinidia_deliciosa Actinidia deliciosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IGY OCA].

-	~~Authors~~: Chruszcz, M., Ciardiello, M.A., Giangrieco, I., Osinski, T.~~, Minor, W.~~	+	==Reference==
-		+	<ref group="xtra">PMID:023969108</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of kirola (Act d 11)~~ -~~triclinic form~~	+	[[Category: Actinidia deliciosa]]
		+	[[Category: Chruszcz, M.]]
		+	[[Category: Ciardiello, M A.]]
		+	[[Category: Giangrieco, I.]]
		+	[[Category: Minor, W.]]
		+	[[Category: Osinski, T.]]
		+	[[Category: Allergen]]
		+	[[Category: Mlp/rrp family]]
		+	[[Category: Pr-10 related]]

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

OCA — Wed, 02 Jan 2013 08:58:04 GMT

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

←Older revision

Revision as of 08:58, 2 January 2013

OCA: New page: '''Unreleased structure''' The entry 4igy is ON HOLD until Paper Publication Authors: Chruszcz, M., Ciardiello, M.A., Giangrieco, I., Osinski, T., Minor, W. Description: Crystal struct...

OCA — Wed, 02 Jan 2013 08:58:03 GMT

New page: '''Unreleased structure''' The entry 4igy is ON HOLD until Paper Publication Authors: Chruszcz, M., Ciardiello, M.A., Giangrieco, I., Osinski, T., Minor, W. Description: Crystal struct...

New page

'''Unreleased structure'''

The entry 4igy is ON HOLD until Paper Publication

Authors: Chruszcz, M., Ciardiello, M.A., Giangrieco, I., Osinski, T., Minor, W.

Description: Crystal structure of kirola (Act d 11) -triclinic form