1xcr - Revision history

OCA at 13:36, 13 March 2024

OCA — Wed, 13 Mar 2024 13:36:31 GMT

←Older revision		Revision as of 13:36, 13 March 2024
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	<StructureSection load='1xcr' size='340' side='right'caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1xcr' size='340' side='right'caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1XCR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XCR FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.7Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~DKFZp564H1122 ([http~~:/~~/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=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [~~http~~://pdbe.org/1xcr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xcr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcr 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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [https://pdbe.org/1xcr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [https://www.ebi.ac.uk/pdbsum/1xcr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CK054_HUMAN CK054_HUMAN]] Exhibits ester hydrolase activity on the substrate p-nitrophenyl acetate.<ref>PMID:16522806</ref>	+	[https://www.uniprot.org/uniprot/CK054_HUMAN CK054_HUMAN] Exhibits ester hydrolase activity on the substrate p-nitrophenyl acetate.<ref>PMID:16522806</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 20:
	</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=1xcr 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=1xcr ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The human protein PTD012 is the longer product of an alternatively spliced gene and was described to be localized in the nucleus. The X-ray structure analysis at 1.7 A resolution of PTD012 through SAD phasing reveals a monomeric protein and a novel fold. The shorter splice form was also studied and appears to be unfolded and non-functional. The structure of PTD012 displays an alphabetabetaalpha four-layer topology. A metal ion residing between the central beta-sheets is partially coordinated by three histidine residues. X-ray absorption near-edge structure (XANES) analysis identifies the PTD012-bound ion as Zn(2+). Tetrahedral coordination of the ion is completed by the carboxylate oxygen atom of an acetate molecule taken up from the crystallization buffer. The binding of Zn(2+) to PTD012 is reminiscent of zinc-containing enzymes such as carboxypeptidase, carbonic anhydrase, and beta-lactamase. Biochemical assays failed to demonstrate any of these enzyme activities in PTD012. However, PTD012 exhibits ester hydrolase activity on the substrate p-nitrophenyl acetate.
-
-	Crystal structure of Homo sapiens PTD012 reveals a zinc-containing hydrolase fold.,Manjasetty BA, Bussow K, Fieber-Erdmann M, Roske Y, Gobom J, Scheich C, Gotz F, Niesen FH, Heinemann U Protein Sci. 2006 Apr;15(4):914-20. Epub 2006 Mar 7. PMID:16522806<ref>PMID:16522806</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1xcr" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Buessow, K]]	+	[[Category: Buessow K]]
-	[[Category: Fieber-Erdmann, M]]	+	[[Category: Fieber-Erdmann M]]
-	[[Category: Goetz, F]]	+	[[Category: Goetz F]]
-	[[Category: Heinemann, U]]	+	[[Category: Heinemann U]]
-	[[Category: Manjasetty~~, B A~~]]	+	[[Category: Manjasetty BA]]
-	[[Category: Roske, Y]]	+	[[Category: Roske Y]]
-	~~[[Category: Acetate buffer]]~~	+
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Splice variant]]~~	+
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Zinc-containing fold~~]]	+

OCA at 09:53, 6 January 2021

OCA — Wed, 06 Jan 2021 09:53:25 GMT

←Older revision		Revision as of 09:53, 6 January 2021
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	==Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold==		==Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold==
-	<StructureSection load='1xcr' size='340' side='right' caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='1xcr' size='340' side='right'caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XCR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XCR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://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'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://pdbe.org/1xcr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcr 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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://pdbe.org/1xcr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Buessow, K]]		[[Category: Buessow, K]]
	[[Category: Fieber-Erdmann, M]]		[[Category: Fieber-Erdmann, M]]

OCA at 06:55, 18 April 2018

OCA — Wed, 18 Apr 2018 06:55:05 GMT

←Older revision		Revision as of 06:55, 18 April 2018
Line 1:		Line 1:
		+
	==Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold==		==Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold==
	<StructureSection load='1xcr' size='340' side='right' caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1xcr' size='340' side='right' caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://pdbe.org/1xcr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr 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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://pdbe.org/1xcr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcr 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/xc/1xcr_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xc/1xcr_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 10:35, 8 February 2016

OCA — Mon, 08 Feb 2016 10:35:05 GMT

←Older revision		Revision as of 10:35, 8 February 2016
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	<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=1xcr ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:42, 10 September 2015

OCA — Thu, 10 Sep 2015 10:42:43 GMT

←Older revision		Revision as of 10:42, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1xcr' size='340' side='right' caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='1xcr' size='340' side='right' caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr 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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://pdbe.org/1xcr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CK054_HUMAN CK054_HUMAN]] Exhibits ester hydrolase activity on the substrate p-nitrophenyl acetate.<ref>PMID:16522806</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		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 1xcr" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Buessow, K]]		[[Category: Buessow, K]]
	[[Category: Fieber-Erdmann, M]]		[[Category: Fieber-Erdmann, M]]

OCA at 13:17, 6 January 2015

OCA — Tue, 06 Jan 2015 13:17:19 GMT

←Older revision		Revision as of 13:17, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCR FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCR FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr 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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Buessow, K.]]	+	[[Category: Buessow, K]]
-	[[Category: Fieber-Erdmann, M.]]	+	[[Category: Fieber-Erdmann, M]]
-	[[Category: Goetz, F.]]	+	[[Category: Goetz, F]]
-	[[Category: Heinemann, U.]]	+	[[Category: Heinemann, U]]
-	[[Category: Manjasetty, B A.]]	+	[[Category: Manjasetty, B A]]
-	[[Category: Roske, Y.]]	+	[[Category: Roske, Y]]
	[[Category: Acetate buffer]]		[[Category: Acetate buffer]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 18:50, 29 September 2014

OCA — Mon, 29 Sep 2014 18:50:23 GMT

←Older revision		Revision as of 18:50, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1xcr.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold==
		+	<StructureSection load='1xcr' size='340' side='right' caption='[[1xcr]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xcr]] is a 2 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=1XCR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCR FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DKFZp564H1122 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1xcr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcr OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcr RCSB], [http://www.ebi.ac.uk/pdbsum/1xcr 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/xc/1xcr_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 ==
		+	The human protein PTD012 is the longer product of an alternatively spliced gene and was described to be localized in the nucleus. The X-ray structure analysis at 1.7 A resolution of PTD012 through SAD phasing reveals a monomeric protein and a novel fold. The shorter splice form was also studied and appears to be unfolded and non-functional. The structure of PTD012 displays an alphabetabetaalpha four-layer topology. A metal ion residing between the central beta-sheets is partially coordinated by three histidine residues. X-ray absorption near-edge structure (XANES) analysis identifies the PTD012-bound ion as Zn(2+). Tetrahedral coordination of the ion is completed by the carboxylate oxygen atom of an acetate molecule taken up from the crystallization buffer. The binding of Zn(2+) to PTD012 is reminiscent of zinc-containing enzymes such as carboxypeptidase, carbonic anhydrase, and beta-lactamase. Biochemical assays failed to demonstrate any of these enzyme activities in PTD012. However, PTD012 exhibits ester hydrolase activity on the substrate p-nitrophenyl acetate.

-	~~{{STRUCTURE_1xcr\| PDB=1xcr \| SCENE= }}~~	+	Crystal structure of Homo sapiens PTD012 reveals a zinc-containing hydrolase fold.,Manjasetty BA, Bussow K, Fieber-Erdmann M, Roske Y, Gobom J, Scheich C, Gotz F, Niesen FH, Heinemann U Protein Sci. 2006 Apr;15(4):914-20. Epub 2006 Mar 7. PMID:16522806<ref>PMID:16522806</ref>

-	~~===Crystal Structure~~ of ~~Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16522806}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1xcr]] is a 2 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=1XCR OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016522806<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Buessow, K.]]		[[Category: Buessow, K.]]

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

OCA — Sat, 05 Jan 2013 11:36:52 GMT

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

←Older revision

Revision as of 11:36, 5 January 2013

OCA at 11:36, 5 January 2013

OCA — Sat, 05 Jan 2013 11:36:49 GMT

←Older revision		Revision as of 11:36, 5 January 2013
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-	{{Seed}}
	[[Image:1xcr.png\|left\|200px]]		[[Image:1xcr.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1xcr", 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_1xcr\| PDB=1xcr \| SCENE= }}		{{STRUCTURE_1xcr\| PDB=1xcr \| SCENE= }}

	===Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold===		===Crystal Structure of Longer Splice Variant of PTD012 from Homo sapiens reveals a novel Zinc-containing fold===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16522806}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16522806 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16522806}}		{{ABSTRACT_PUBMED_16522806}}

	==About this Structure==		==About this Structure==
-	~~1XCR~~ is a 2 ~~chains~~ structure ~~of sequences~~ 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=1XCR OCA].	+	[[1xcr]] is a 2 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=1XCR OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16522806~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016522806</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Buessow, K.]]		[[Category: Buessow, K.]]
Line 32:		Line 20:
	[[Category: Roske, Y.]]		[[Category: Roske, Y.]]
	[[Category: Acetate buffer]]		[[Category: Acetate buffer]]
		+	[[Category: Metal binding protein]]
	[[Category: Splice variant]]		[[Category: Splice variant]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Zinc-containing fold]]		[[Category: Zinc-containing fold]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:22:35 2009''

OCA at 19:22, 16 February 2009

OCA — Mon, 16 Feb 2009 19:22:36 GMT

←Older revision		Revision as of 19:22, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1XCR is a ~~[[Single protein]]~~ structure of ~~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=1XCR OCA].	+	1XCR is a 2 chains structure of sequences 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=1XCR OCA].

	==Reference==		==Reference==
-	Crystal structure of Homo sapiens PTD012 reveals a zinc-containing hydrolase fold., Manjasetty BA, Bussow K, Fieber-Erdmann M, Roske Y, Gobom J, Scheich C, Gotz F, Niesen FH, Heinemann U, Protein Sci. 2006 Apr;15(4):914-20. Epub 2006 Mar 7. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16522806 16522806]~~	+	<ref group="xtra">PMID:16522806</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Buessow, K.]]		[[Category: Buessow, K.]]
	[[Category: Fieber-Erdmann, M.]]		[[Category: Fieber-Erdmann, M.]]
Line 37:		Line 36:
	[[Category: Zinc-containing fold]]		[[Category: Zinc-containing fold]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Jul 6 00~~:57:~~36 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 21:22:35 2009''