1xkg - Revision history

OCA at 06:46, 23 August 2023

2023-08-23T06:46:50Z

←Older revision		Revision as of 06:46, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1xkg' size='340' side='right'caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='1xkg' size='340' side='right'caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Derpt Derpt~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XKG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XKG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</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]] 1.61Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [https://pdbe.org/1xkg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [https://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg 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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [https://pdbe.org/1xkg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [https://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PEPT1_DERPT PEPT1_DERPT]] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.	+	[https://www.uniprot.org/uniprot/PEPT1_DERPT PEPT1_DERPT] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Derpt]]
-	[[Category: Large Structures]]
-	[[Category: Gajhede, M]]
-	[[Category: Meno, K]]
-	[[Category: Thorsted, P B]]
-	[[Category: Cysteine protease]]
	[[Category: Dermatophagoides pteronyssinus]]		[[Category: Dermatophagoides pteronyssinus]]
-	[[Category: ~~House dust mite~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Hydrolase~~]]	+	[[Category: Gajhede M]]
-	[[Category: ~~Inactive mutant~~]]	+	[[Category: Meno K]]
-	[[Category: ~~Major allergen]]~~	+	[[Category: Thorsted PB]]
-	~~[[Category: Pro peptide~~]]	+

OCA at 16:41, 20 October 2021

2021-10-20T16:41:49Z

←Older revision		Revision as of 16:41, 20 October 2021
Line 3:		Line 3:
	<StructureSection load='1xkg' size='340' side='right'caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='1xkg' size='340' side='right'caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Derpt Derpt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1XKG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Derpt Derpt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XKG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [~~http~~://pdbe.org/1xkg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg 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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [https://pdbe.org/1xkg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [https://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PEPT1_DERPT PEPT1_DERPT]] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.	+	[[https://www.uniprot.org/uniprot/PEPT1_DERPT PEPT1_DERPT]] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:04, 6 January 2021

2021-01-06T10:04:37Z

←Older revision		Revision as of 10:04, 6 January 2021
Line 1:		Line 1:

	==Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution==		==Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution==
-	<StructureSection load='1xkg' size='340' side='right' caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>	+	<StructureSection load='1xkg' size='340' side='right'caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Derpt Derpt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XKG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Derpt Derpt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XKG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://pdbe.org/1xkg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg 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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://pdbe.org/1xkg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Derpt]]		[[Category: Derpt]]
		+	[[Category: Large Structures]]
	[[Category: Gajhede, M]]		[[Category: Gajhede, M]]
	[[Category: Meno, K]]		[[Category: Meno, K]]

OCA at 07:11, 18 April 2018

2018-04-18T07:11:02Z

←Older revision		Revision as of 07:11, 18 April 2018
Line 1:		Line 1:
		+
	==Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution==		==Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution==
	<StructureSection load='1xkg' size='340' side='right' caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='1xkg' size='340' side='right' caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://pdbe.org/1xkg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg 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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://pdbe.org/1xkg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xk/1xkg_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xk/1xkg_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>

OCA at 08:47, 7 February 2016

2016-02-07T08:47:24Z

←Older revision		Revision as of 08:47, 7 February 2016
Line 17:		Line 17:
	<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=1xkg ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:46, 9 September 2015

2015-09-09T23:46:29Z

←Older revision		Revision as of 23:46, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='1xkg' size='340' side='right' caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='1xkg' size='340' side='right' caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XKG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Derpt Derpt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XKG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 ~~Dermatophagoides pteronyssinus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 DERPT])</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg 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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://pdbe.org/1xkg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~DERP1_DERPT DERP1_DERPT~~]] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.	+	[[http://www.uniprot.org/uniprot/PEPT1_DERPT PEPT1_DERPT]] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 27:		Line 27:
	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 1xkg" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dermatophagoides pteronyssinus~~]]	+	[[Category: Derpt]]
	[[Category: Gajhede, M]]		[[Category: Gajhede, M]]
	[[Category: Meno, K]]		[[Category: Meno, K]]
	[[Category: Thorsted, P B]]		[[Category: Thorsted, P B]]
	[[Category: Cysteine protease]]		[[Category: Cysteine protease]]
		+	[[Category: Dermatophagoides pteronyssinus]]
	[[Category: House dust mite]]		[[Category: House dust mite]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 13:46, 24 December 2014

2014-12-24T13:46:37Z

←Older revision		Revision as of 13:46, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XKG FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XKG FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 Dermatophagoides pteronyssinus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 Dermatophagoides pteronyssinus])</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg 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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DERP1_DERPT DERP1_DERPT]] Thiol protease, with a preference for substrates with a large hydrophobic side chain in the P2 position, or with basic residues.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Dermatophagoides pteronyssinus]]		[[Category: Dermatophagoides pteronyssinus]]
-	[[Category: Gajhede, M.]]	+	[[Category: Gajhede, M]]
-	[[Category: Meno, K.]]	+	[[Category: Meno, K]]
-	[[Category: Thorsted, P B.]]	+	[[Category: Thorsted, P B]]
	[[Category: Cysteine protease]]		[[Category: Cysteine protease]]
-	[[Category: Dermatophagoides pteronyssinus]]
	[[Category: House dust mite]]		[[Category: House dust mite]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 19:57, 29 September 2014

2014-09-29T19:57:25Z

←Older revision		Revision as of 19:57, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1xkg.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution==
		+	<StructureSection load='1xkg' size='340' side='right' caption='[[1xkg]], [[Resolution\|resolution]] 1.61Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XKG FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=YT3:YTTRIUM+(III)+ION'>YT3</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DERP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6956 Dermatophagoides pteronyssinus])</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=1xkg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xkg RCSB], [http://www.ebi.ac.uk/pdbsum/1xkg 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/xk/1xkg_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 ==
		+	Allergy to house dust mite is among the most prevalent allergic diseases worldwide. Most house dust mite allergic patients react to Der p 1 from Dermatophagoides pteronyssinus, which is a cysteine protease. To avoid heterogeneity in the sample used for crystallization, a modified recombinant molecule was produced. The sequence of the proDer p 1 allergen was modified to reduce glycosylation and to abolish enzymatic activity. The resulting rproDer p 1 preparation was homogenous and stable and yielded crystals diffracting to a resolution of 1.61 A. The active site is located in a large cleft on the surface of the molecule. The 80-aa pro-peptide adopts a unique fold that interacts with the active site cleft and a substantial adjacent area on the mature region, excluding access to the cleft and the active site. Studies performed using crossed-line immunoelectrophoresis and IgE inhibition experiments indicated that several epitopes are covered by the pro-peptide and that the epitopes on the recombinant mature molecule are indistinguishable from those on the natural one. The structure confirms previous results suggesting a preference for aliphatic residues in the important P2 position in substrates. Sequence variations in related species are concentrated on the surface, which explains the existence of cross-reacting and species-specific antibodies. This study describes the first crystal structure of one of the clinically most important house dust mite allergens, the cysteine protease Der p 1.

-	~~{{STRUCTURE_1xkg\| PDB=1xkg \| SCENE= }}~~	+	The crystal structure of recombinant proDer p 1, a major house dust mite proteolytic allergen.,Meno K, Thorsted PB, Ipsen H, Kristensen O, Larsen JN, Spangfort MD, Gajhede M, Lund K J Immunol. 2005 Sep 15;175(6):3835-45. PMID:16148130<ref>PMID:16148130</ref>

-	~~===Crystal structure~~ of the ~~major house dust mite allergen Der p 1 in its pro form at 1~~.~~61 A resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16148130}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1xkg]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016148130<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Dermatophagoides pteronyssinus]]		[[Category: Dermatophagoides pteronyssinus]]
	[[Category: Gajhede, M.]]		[[Category: Gajhede, M.]]

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

2013-01-05T13:23:40Z

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

←Older revision

Revision as of 13:23, 5 January 2013

OCA at 13:23, 5 January 2013

2013-01-05T13:23:37Z

←Older revision		Revision as of 13:23, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1xkg.png\|left\|200px]]		[[Image:1xkg.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1xkg", 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_1xkg\| PDB=1xkg \| SCENE= }}		{{STRUCTURE_1xkg\| PDB=1xkg \| SCENE= }}

	===Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution===		===Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A resolution===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16148130}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16148130 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16148130}}		{{ABSTRACT_PUBMED_16148130}}

	==About this Structure==		==About this Structure==
-	~~1XKG~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA].	+	[[1xkg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dermatophagoides_pteronyssinus Dermatophagoides pteronyssinus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKG OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16148130~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016148130</ref><references group="xtra"/>
	[[Category: Dermatophagoides pteronyssinus]]		[[Category: Dermatophagoides pteronyssinus]]
	[[Category: Gajhede, M.]]		[[Category: Gajhede, M.]]
Line 31:		Line 19:
	[[Category: Dermatophagoides pteronyssinus]]		[[Category: Dermatophagoides pteronyssinus]]
	[[Category: House dust mite]]		[[Category: House dust mite]]
		+	[[Category: Hydrolase]]
	[[Category: Inactive mutant]]		[[Category: Inactive mutant]]
	[[Category: Major allergen]]		[[Category: Major allergen]]
	[[Category: Pro peptide]]		[[Category: Pro peptide]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 12:40:57 2009''