1gqb - Revision history

OCA at 11:23, 27 March 2024

OCA — Wed, 27 Mar 2024 11:23:46 GMT

←Older revision		Revision as of 11:23, 27 March 2024
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	<StructureSection load='1gqb' size='340' side='right'caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1gqb' size='340' side='right'caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1gqb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GQB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GQB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GQB FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BR:BROMIDE+ION'>BR</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]] 1.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [https://pdbe.org/1gqb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [https://www.ebi.ac.uk/pdbsum/1gqb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gqb 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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [https://pdbe.org/1gqb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [https://www.ebi.ac.uk/pdbsum/1gqb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gqb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/MPRI_HUMAN MPRI_HUMAN]] Transport of phosphorylated lysosomal enzymes from the Golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the Golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelyosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds IGF2. Acts as a positive regulator of T-cell coactivation, by binding DPP4.<ref>PMID:10900005</ref>	+	[https://www.uniprot.org/uniprot/MPRI_HUMAN MPRI_HUMAN] Transport of phosphorylated lysosomal enzymes from the Golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the Golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelyosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds IGF2. Acts as a positive regulator of T-cell coactivation, by binding DPP4.<ref>PMID:10900005</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1gqb 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=1gqb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Improved data quality now makes it feasible to exploit the weak anomalous signal derived only from the sulfurs inherent to the protein or in particular from halide ions incorporated by soaking. The latter technique requires the location of a high number of partially occupied halide sites. This number appears to be roughly proportional to the exposed protein surface. This paper explores the application of dual-space ab initio methods as implemented in the program SHELXD to the location of substructures of sulfur in SAD experiments, bromide in SAD and MAD experiments and iodide using SAD and SIRAS to determine the anomalous-atom substructure. Sets of atoms consistent with the Patterson function were generated as a starting point for the dual-space recycling procedure in SHELXD. The substructure is then expanded to the full structure by maximum-likelihood phasing with SHARP and density modification with the program DM. Success in the location of the substructures and subsequent phasing depends critically on the quality of the data and on the extent of the anomalous signal. This varies with each crystal and soak, but for the same crystal the significance of the anomalous signal was found to be highly sensitive to the redundancy of the intensity measurements, which in some cases made all the difference. This is illustrated by the determination of the previously unknown structure of repeat 11 of the human mannose-6-phosphate/insulin-like growth factor II receptor (Man6P/IGFII-receptor), with 310 amino acids in the asymmetric unit, which was phased by soaking the crystals in a cryoprotectant solution containing halide anions.
-
-	Locating the anomalous scatterer substructures in halide and sulfur phasing.,Uson I, Schmidt B, von Bulow R, Grimme S, von Figura K, Dauter M, Rajashankar KR, Dauter Z, Sheldrick GM Acta Crystallogr D Biol Crystallogr. 2003 Jan;59(Pt 1):57-66. Epub 2002, Dec 19. PMID:12499540<ref>PMID:12499540</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1gqb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Buelow, R Von]]~~	+	[[Category: Dauter M]]
-	[[Category: Dauter, M]]	+	[[Category: Dauter Z]]
-	[[Category: Dauter, Z]]	+	[[Category: Grimme S]]
-	~~[[Category: Figura, K Von~~]]	+	[[Category: Rajashankar KR]]
-	[[Category: Grimme, S]]	+	[[Category: Schmidt B]]
-	[[Category: Rajashankar~~, K R~~]]	+	[[Category: Uson I]]
-	[[Category: Schmidt, B]]	+	[[Category: Von Buelow R]]
-	[[Category: Uson, I]]	+	[[Category: Von Figura K]]
-	[[Category: ~~Glycoprotein~~]]	+
-	[[Category: ~~Igf-ii receptor]]~~	+
-	~~[[Category: Mir-receptor]]~~	+
-	~~[[Category: Receptor]]~~	+
-	~~[[Category: Transport~~]]	+

OCA at 07:04, 24 February 2021

OCA — Wed, 24 Feb 2021 07:04:59 GMT

←Older revision		Revision as of 07:04, 24 February 2021
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	<StructureSection load='1gqb' size='340' side='right'caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1gqb' size='340' side='right'caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1GQB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1gqb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GQB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GQB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [~~http~~://pdbe.org/1gqb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1gqb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1gqb 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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [https://pdbe.org/1gqb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [https://www.ebi.ac.uk/pdbsum/1gqb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gqb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MPRI_HUMAN MPRI_HUMAN]] Transport of phosphorylated lysosomal enzymes from the Golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the Golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelyosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds IGF2. Acts as a positive regulator of T-cell coactivation, by binding DPP4.<ref>PMID:10900005</ref>	+	[[https://www.uniprot.org/uniprot/MPRI_HUMAN MPRI_HUMAN]] Transport of phosphorylated lysosomal enzymes from the Golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the Golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelyosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds IGF2. Acts as a positive regulator of T-cell coactivation, by binding DPP4.<ref>PMID:10900005</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:01, 23 May 2019

OCA — Thu, 23 May 2019 07:01:57 GMT

←Older revision		Revision as of 07:01, 23 May 2019
Line 1:		Line 1:

	==HUMAN MIR-RECEPTOR, REPEAT 11==		==HUMAN MIR-RECEPTOR, REPEAT 11==
-	<StructureSection load='1gqb' size='340' side='right' caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1gqb' size='340' side='right'caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Buelow, R Von]]		[[Category: Buelow, R Von]]
	[[Category: Dauter, M]]		[[Category: Dauter, M]]

OCA at 08:47, 30 January 2019

OCA — Wed, 30 Jan 2019 08:47:36 GMT

←Older revision		Revision as of 08:47, 30 January 2019
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	</div>		</div>
	<div class="pdbe-citations 1gqb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1gqb" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Insulin-like growth factor receptor\|Insulin-like growth factor receptor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:17, 3 January 2018

OCA — Wed, 03 Jan 2018 06:17:50 GMT

←Older revision		Revision as of 06:17, 3 January 2018
Line 1:		Line 1:
		+
	==HUMAN MIR-RECEPTOR, REPEAT 11==		==HUMAN MIR-RECEPTOR, REPEAT 11==
	<StructureSection load='1gqb' size='340' side='right' caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1gqb' size='340' side='right' caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://pdbe.org/1gqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb 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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://pdbe.org/1gqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1gqb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gq/1gqb_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gq/1gqb_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>
Line 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 1gqb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1gqb" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Insulin-like growth factor receptor\|Insulin-like growth factor receptor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 02:34, 10 February 2016

OCA — Wed, 10 Feb 2016 02:34:10 GMT

←Older revision		Revision as of 02:34, 10 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=1gqb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:31, 11 September 2015

OCA — Fri, 11 Sep 2015 04:31:34 GMT

←Older revision		Revision as of 04:31, 11 September 2015
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	<StructureSection load='1gqb' size='340' side='right' caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1gqb' size='340' side='right' caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb 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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://pdbe.org/1gqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 1gqb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Buelow, R Von]]		[[Category: Buelow, R Von]]
	[[Category: Dauter, M]]		[[Category: Dauter, M]]

OCA at 11:11, 25 December 2014

OCA — Thu, 25 Dec 2014 11:11:11 GMT

←Older revision		Revision as of 11:11, 25 December 2014
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	<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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb 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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MPRI_HUMAN MPRI_HUMAN]] Transport of phosphorylated lysosomal enzymes from the Golgi complex and the cell surface to lysosomes. Lysosomal enzymes bearing phosphomannosyl residues bind specifically to mannose-6-phosphate receptors in the Golgi apparatus and the resulting receptor-ligand complex is transported to an acidic prelyosomal compartment where the low pH mediates the dissociation of the complex. This receptor also binds IGF2. Acts as a positive regulator of T-cell coactivation, by binding DPP4.<ref>PMID:10900005</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 18:18, 22 December 2014

OCA — Mon, 22 Dec 2014 18:18:04 GMT

←Older revision		Revision as of 18:18, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb 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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Buelow, R Von.]]	+	[[Category: Buelow, R Von]]
-	[[Category: Dauter, M.]]	+	[[Category: Dauter, M]]
-	[[Category: Dauter, Z.]]	+	[[Category: Dauter, Z]]
-	[[Category: Figura, K Von.]]	+	[[Category: Figura, K Von]]
-	[[Category: Grimme, S.]]	+	[[Category: Grimme, S]]
-	[[Category: Rajashankar, K R.]]	+	[[Category: Rajashankar, K R]]
-	[[Category: Schmidt, B.]]	+	[[Category: Schmidt, B]]
-	[[Category: Uson, I.]]	+	[[Category: Uson, I]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
	[[Category: Igf-ii receptor]]		[[Category: Igf-ii receptor]]

OCA at 08:22, 28 September 2014

OCA — Sun, 28 Sep 2014 08:22:45 GMT

←Older revision		Revision as of 08:22, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1gqb.~~png~~\|~~left~~\|200px]]	+	==HUMAN MIR-RECEPTOR, REPEAT 11==
		+	<StructureSection load='1gqb' size='340' side='right' caption='[[1gqb]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1gqb]] 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=1GQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GQB FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1e6f\|1e6f]], [[1gp0\|1gp0]], [[1gp3\|1gp3]]</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=1gqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gqb RCSB], [http://www.ebi.ac.uk/pdbsum/1gqb 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/gq/1gqb_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 ==
		+	Improved data quality now makes it feasible to exploit the weak anomalous signal derived only from the sulfurs inherent to the protein or in particular from halide ions incorporated by soaking. The latter technique requires the location of a high number of partially occupied halide sites. This number appears to be roughly proportional to the exposed protein surface. This paper explores the application of dual-space ab initio methods as implemented in the program SHELXD to the location of substructures of sulfur in SAD experiments, bromide in SAD and MAD experiments and iodide using SAD and SIRAS to determine the anomalous-atom substructure. Sets of atoms consistent with the Patterson function were generated as a starting point for the dual-space recycling procedure in SHELXD. The substructure is then expanded to the full structure by maximum-likelihood phasing with SHARP and density modification with the program DM. Success in the location of the substructures and subsequent phasing depends critically on the quality of the data and on the extent of the anomalous signal. This varies with each crystal and soak, but for the same crystal the significance of the anomalous signal was found to be highly sensitive to the redundancy of the intensity measurements, which in some cases made all the difference. This is illustrated by the determination of the previously unknown structure of repeat 11 of the human mannose-6-phosphate/insulin-like growth factor II receptor (Man6P/IGFII-receptor), with 310 amino acids in the asymmetric unit, which was phased by soaking the crystals in a cryoprotectant solution containing halide anions.

-	~~{{STRUCTURE_1gqb\| PDB=1gqb \| SCENE= }}~~	+	Locating the anomalous scatterer substructures in halide and sulfur phasing.,Uson I, Schmidt B, von Bulow R, Grimme S, von Figura K, Dauter M, Rajashankar KR, Dauter Z, Sheldrick GM Acta Crystallogr D Biol Crystallogr. 2003 Jan;59(Pt 1):57-66. Epub 2002, Dec 19. PMID:12499540<ref>PMID:12499540</ref>

-	~~===HUMAN MIR-RECEPTOR~~, ~~REPEAT 11===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12499540}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1gqb]] 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=1GQB OCA].~~	+

	==See Also==		==See Also==
	*[[Insulin-like growth factor receptor\|Insulin-like growth factor receptor]]		*[[Insulin-like growth factor receptor\|Insulin-like growth factor receptor]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:012499540<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Buelow, R Von.]]		[[Category: Buelow, R Von.]]