5x7y - Revision history

OCA at 07:55, 22 November 2023

OCA — Wed, 22 Nov 2023 07:55:30 GMT

←Older revision		Revision as of 07:55, 22 November 2023
Line 1:		Line 1:

	==Crystal Structure of the Dog Lipocalin Allergen Can f 6==		==Crystal Structure of the Dog Lipocalin Allergen Can f 6==
-	<StructureSection load='5x7y' size='340' side='right' caption='[[5x7y]], [[Resolution\|resolution]] 2.35Å' scene=''>	+	<StructureSection load='5x7y' size='340' side='right'caption='[[5x7y]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x7y]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Canlf Canlf~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X7Y OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5X7Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x7y]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Canis_lupus_familiaris Canis lupus familiaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X7Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5X7Y FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 2.35Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~lcn ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=9615 CANLF]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5x7y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x7y OCA], [~~http~~://pdbe.org/5x7y PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5x7y RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5x7y PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5x7y 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=5x7y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x7y OCA], [https://pdbe.org/5x7y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5x7y RCSB], [https://www.ebi.ac.uk/pdbsum/5x7y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5x7y ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/LI601_CANLF LI601_CANLF]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Canlf~~]]	+	[[Category: Canis lupus familiaris]]
-	[[Category: Inui, T]]	+	[[Category: Large Structures]]
-	[[Category: Nakatsuji, M]]	+	[[Category: Inui T]]
-	[[Category: Nishimura, S]]	+	[[Category: Nakatsuji M]]
-	[[Category: Otani, T]]	+	[[Category: Nishimura S]]
-	[[Category: Sugiura, K]]	+	[[Category: Otani T]]
-	[[Category: Yamamoto, K]]	+	[[Category: Sugiura K]]
-	~~[[Category: Allergen]]~~	+	[[Category: Yamamoto K]]
-	~~[[Category: Lipocalin allergen~~]]	+

OCA at 08:17, 6 March 2019

OCA — Wed, 06 Mar 2019 08:17:22 GMT

←Older revision		Revision as of 08:17, 6 March 2019
Line 1:		Line 1:

	==Crystal Structure of the Dog Lipocalin Allergen Can f 6==		==Crystal Structure of the Dog Lipocalin Allergen Can f 6==
-	<StructureSection load='5x7y' size='340' side='right' caption='[[5x7y]], [[Resolution\|resolution]] 2.35Å' scene=''>	+	<StructureSection load='5x7y' size='340' side='right' caption='[[5x7y]], [[Resolution\|resolution]] 2.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x7y]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X7Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X7Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x7y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Canlf Canlf]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X7Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X7Y FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lcn ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9615 CANLF])</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=5x7y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x7y OCA], [http://pdbe.org/5x7y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x7y RCSB], [http://www.ebi.ac.uk/pdbsum/5x7y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x7y 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=5x7y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x7y OCA], [http://pdbe.org/5x7y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x7y RCSB], [http://www.ebi.ac.uk/pdbsum/5x7y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x7y ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Several dog allergens cause allergic reactions in humans worldwide. Seven distinct dog allergens, designated Canis familiaris allergen 1 to 7 (Can f 1-Can f 7), have been identified thus far. Can f 6 shows high sequence similarity and cross-reactivity with Fel d 4 and Equ c 1, major cat and horse allergens, respectively. This study was conducted on the allergenic epitopes of Can f 6 based on its structural characterization. We demonstrated that sera from 18 out of 38 (47%) dog-sensitized patients reacted to recombinant Can f 6 protein (rCan f 6). We then determined the crystal structure of rCan f 6 by X-ray crystallography, which exhibited a conserved tertiary structural architecture found in lipocalin family proteins. Based on the tertiary structure and sequence similarities with Fel d 4 and Equ c 1, we predicted three IgE-recognizing sites that are possibly involved in cross-reactivity. Substituting three successive amino acids in these sites to triple alanine decreased IgE reactivity to the allergen. However, the degree of reduction in IgE reactivity largely depended on the site mutated and the serum used, suggesting that Can f 6 is a polyvalent allergen containing multiple epitopes and Can f 6-reactive sera contain varied amounts of IgE recognising individual Can f 6 epitopes including those predicted in this study. We also demonstrated that the predicted epitopes are partly involved in IgE cross-reactivity to Fel d 4. Interestingly, the effect of the mutation depended on whether the protein was structured or denatured, indicating that the bona fide tertiary structure of Can f 6 is essential in determining its IgE epitopes.
		+
		+	Crystal structure of the dog allergen Can f 6 and structure-based implications of its cross-reactivity with the cat allergen Fel d 4.,Yamamoto K, Ishibashi O, Sugiura K, Ubatani M, Sakaguchi M, Nakatsuji M, Shimamoto S, Noda M, Uchiyama S, Fukutomi Y, Nishimura S, Inui T Sci Rep. 2019 Feb 6;9(1):1503. doi: 10.1038/s41598-018-38134-w. PMID:30728436<ref>PMID:30728436</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5x7y" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Canlf]]
	[[Category: Inui, T]]		[[Category: Inui, T]]
	[[Category: Nakatsuji, M]]		[[Category: Nakatsuji, M]]

OCA at 05:55, 4 April 2018

OCA — Wed, 04 Apr 2018 05:55:18 GMT

←Older revision		Revision as of 05:55, 4 April 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 5x7y is ON HOLD until Paper Publication~~	+	==Crystal Structure of the Dog Lipocalin Allergen Can f 6==
-		+	<StructureSection load='5x7y' size='340' side='right' caption='[[5x7y]], [[Resolution\|resolution]] 2.35Å' scene=''>
-	~~Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5x7y]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X7Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X7Y FirstGlance]. <br>
-	~~Description:~~ Crystal Structure of the Dog Lipocalin Allergen Can f 6	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<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=5x7y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x7y OCA], [http://pdbe.org/5x7y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x7y RCSB], [http://www.ebi.ac.uk/pdbsum/5x7y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x7y ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Yamamoto~~, K]]	+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Inui, T]]		[[Category: Inui, T]]
	[[Category: Nakatsuji, M]]		[[Category: Nakatsuji, M]]
-	[[Category: Sugiura, K]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]
		+	[[Category: Sugiura, K]]
		+	[[Category: Yamamoto, K]]
		+	[[Category: Allergen]]
		+	[[Category: Lipocalin allergen]]

OCA at 04:51, 28 February 2018

OCA — Wed, 28 Feb 2018 04:51:27 GMT

←Older revision		Revision as of 04:51, 28 February 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x7y is ON HOLD	+	The entry 5x7y is ON HOLD until Paper Publication

	Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.		Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.
Line 7:		Line 7:
	Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6		Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Nakatsuji, M]]
-	[[Category: Sugiura, K]]
	[[Category: Yamamoto, K]]		[[Category: Yamamoto, K]]
	[[Category: Inui, T]]		[[Category: Inui, T]]
		+	[[Category: Nakatsuji, M]]
		+	[[Category: Sugiura, K]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]

OCA at 05:05, 15 February 2018

OCA — Thu, 15 Feb 2018 05:05:37 GMT

←Older revision		Revision as of 05:05, 15 February 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x7y is ON HOLD ~~until Paper Publication~~	+	The entry 5x7y is ON HOLD

	Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.		Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.

OCA at 04:49, 3 January 2018

OCA — Wed, 03 Jan 2018 04:49:05 GMT

←Older revision		Revision as of 04:49, 3 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x7y is ON HOLD	+	The entry 5x7y is ON HOLD until Paper Publication

	Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.		Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.
Line 7:		Line 7:
	Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6		Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Nakatsuji, M]]
		+	[[Category: Sugiura, K]]
	[[Category: Yamamoto, K]]		[[Category: Yamamoto, K]]
	[[Category: Inui, T]]		[[Category: Inui, T]]
-	[[Category: Sugiura, K]]
-	[[Category: Nakatsuji, M]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]

OCA at 04:48, 20 December 2017

OCA — Wed, 20 Dec 2017 04:48:18 GMT

←Older revision		Revision as of 04:48, 20 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x7y is ON HOLD ~~until Paper Publication~~	+	The entry 5x7y is ON HOLD

	Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.		Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.
Line 9:		Line 9:
	[[Category: Yamamoto, K]]		[[Category: Yamamoto, K]]
	[[Category: Inui, T]]		[[Category: Inui, T]]
-	[[Category: Nakatsuji, M]]
	[[Category: Sugiura, K]]		[[Category: Sugiura, K]]
		+	[[Category: Nakatsuji, M]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]

OCA at 05:44, 13 December 2017

OCA — Wed, 13 Dec 2017 05:44:58 GMT

←Older revision		Revision as of 05:44, 13 December 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x7y is ON HOLD	+	The entry 5x7y is ON HOLD until Paper Publication

	Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.		Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.
Line 7:		Line 7:
	Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6		Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Nakatsuji, M]]
-	[[Category: Sugiura, K]]
	[[Category: Yamamoto, K]]		[[Category: Yamamoto, K]]
	[[Category: Inui, T]]		[[Category: Inui, T]]
		+	[[Category: Nakatsuji, M]]
		+	[[Category: Sugiura, K]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]

OCA at 06:22, 22 November 2017

OCA — Wed, 22 Nov 2017 06:22:05 GMT

←Older revision		Revision as of 06:22, 22 November 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x7y is ON HOLD ~~until Paper Publication~~	+	The entry 5x7y is ON HOLD

	Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.		Authors: Yamamoto, K., Otani, T., Sugiura, K., Nakatsuji, M., Nishimura, S., Inui, T.
Line 7:		Line 7:
	Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6		Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Inui, T]]
-	[[Category: Yamamoto, K]]
-	[[Category: Sugiura, K]]
	[[Category: Nakatsuji, M]]		[[Category: Nakatsuji, M]]
		+	[[Category: Sugiura, K]]
		+	[[Category: Yamamoto, K]]
		+	[[Category: Inui, T]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]

OCA at 15:19, 27 September 2017

OCA — Wed, 27 Sep 2017 15:19:21 GMT

←Older revision		Revision as of 15:19, 27 September 2017
Line 7:		Line 7:
	Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6		Description: Crystal Structure of the Dog Lipocalin Allergen Can f 6
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Yamamoto, K]]
	[[Category: Inui, T]]		[[Category: Inui, T]]
		+	[[Category: Yamamoto, K]]
	[[Category: Sugiura, K]]		[[Category: Sugiura, K]]
	[[Category: Nakatsuji, M]]		[[Category: Nakatsuji, M]]
	[[Category: Nishimura, S]]		[[Category: Nishimura, S]]
	[[Category: Otani, T]]		[[Category: Otani, T]]