6pha - Revision history

OCA at 07:29, 11 October 2023

OCA — Wed, 11 Oct 2023 07:29:30 GMT

←Older revision		Revision as of 07:29, 11 October 2023
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	<StructureSection load='6pha' size='340' side='right'caption='[[6pha]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='6pha' size='340' side='right'caption='[[6pha]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pha]] is a 1 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=6PHA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PHA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pha]] is a 1 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=6PHA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PHA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=ACT:ACETATE+ION'>ACT</scene~~>, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=VO4:VANADATE+ION'>VO4</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.299Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PTPN1, PTP1B ([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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=VO4:VANADATE+ION'>VO4</scene></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48]~~ </~~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=6pha FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pha OCA], [https://pdbe.org/6pha PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pha RCSB], [https://www.ebi.ac.uk/pdbsum/6pha PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pha ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6pha FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pha OCA], [~~http~~://pdbe.org/6pha PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6pha RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6pha PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6pha ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PTN1_HUMAN PTN1_HUMAN]] Tyrosine-protein phosphatase which acts as a regulator of endoplasmic reticulum unfolded protein response. Mediates dephosphorylation of EIF2AK3/PERK; inactivating the protein kinase activity of EIF2AK3/PERK. May play an important role in CKII- and p60c-src-induced signal transduction cascades. May regulate the EFNA5-EPHA3 signaling pathway which modulates cell reorganization and cell-cell repulsion.<ref>PMID:21135139</ref> <ref>PMID:22169477</ref>	+	[https://www.uniprot.org/uniprot/PTN1_HUMAN PTN1_HUMAN] Tyrosine-protein phosphatase which acts as a regulator of endoplasmic reticulum unfolded protein response. Mediates dephosphorylation of EIF2AK3/PERK; inactivating the protein kinase activity of EIF2AK3/PERK. May play an important role in CKII- and p60c-src-induced signal transduction cascades. May regulate the EFNA5-EPHA3 signaling pathway which modulates cell reorganization and cell-cell repulsion.<ref>PMID:21135139</ref> <ref>PMID:22169477</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Protein-tyrosine-phosphatase]]~~	+	[[Category: Cui DS]]
-	[[Category: Cui~~, D S~~]]	+	[[Category: Lipchock JM]]
-	[[Category: Lipchock~~, J M~~]]	+	[[Category: Loria JP]]
-	[[Category: Loria~~, J P]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Multiconformer]]~~	+
-	~~[[Category: Ptp]]~~	+
-	~~[[Category: Ptp1b]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 10:37, 27 March 2020

OCA — Fri, 27 Mar 2020 10:37:00 GMT

←Older revision		Revision as of 10:37, 27 March 2020
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	</div>		</div>
	<div class="pdbe-citations 6pha" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6pha" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tyrosine phosphatase 3D structures\|Tyrosine phosphatase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:05, 28 August 2019

OCA — Wed, 28 Aug 2019 16:05:38 GMT

←Older revision		Revision as of 16:05, 28 August 2019
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	<StructureSection load='6pha' size='340' side='right'caption='[[6pha]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='6pha' size='340' side='right'caption='[[6pha]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pha]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PHA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PHA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pha]] is a 1 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=6PHA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PHA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=VO4:VANADATE+ION'>VO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=VO4:VANADATE+ION'>VO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PTPN1, PTP1B ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=6pha FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pha OCA], [http://pdbe.org/6pha PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pha RCSB], [http://www.ebi.ac.uk/pdbsum/6pha PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pha ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6pha FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pha OCA], [http://pdbe.org/6pha PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pha RCSB], [http://www.ebi.ac.uk/pdbsum/6pha PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pha ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Protein-tyrosine-phosphatase]]		[[Category: Protein-tyrosine-phosphatase]]

OCA at 06:01, 7 August 2019

OCA — Wed, 07 Aug 2019 06:01:30 GMT

←Older revision		Revision as of 06:01, 7 August 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6pha is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Protein Tyrosine Phosphatase 1B (1-301), F182A mutant, vanadate bound state==
		+	<StructureSection load='6pha' size='340' side='right'caption='[[6pha]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6pha]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PHA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PHA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=VO4:VANADATE+ION'>VO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Protein-tyrosine-phosphatase Protein-tyrosine-phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.48 3.1.3.48] </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=6pha FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pha OCA], [http://pdbe.org/6pha PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pha RCSB], [http://www.ebi.ac.uk/pdbsum/6pha PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pha ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PTN1_HUMAN PTN1_HUMAN]] Tyrosine-protein phosphatase which acts as a regulator of endoplasmic reticulum unfolded protein response. Mediates dephosphorylation of EIF2AK3/PERK; inactivating the protein kinase activity of EIF2AK3/PERK. May play an important role in CKII- and p60c-src-induced signal transduction cascades. May regulate the EFNA5-EPHA3 signaling pathway which modulates cell reorganization and cell-cell repulsion.<ref>PMID:21135139</ref> <ref>PMID:22169477</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Active-site loops are integral to the function of numerous enzymes. They enable substrate and product binding and release, sequester reaction intermediates, and recruit catalytic groups. Here, we examine the catalytic loop in the enzyme protein tyrosine phosphatase 1B (PTP1B). PTP1B has a mobile so-called WPD loop (named for its three N-terminal residues) that initiates the dephosphorylation of phosphor-tyrosine substrates upon loop closure. We have combined X-ray crystallography, solution NMR, and pre-steady-state kinetics experiments on wild-type and five WPD loop mutants to identify the relationships between the loop structure, dynamics, and function. The motions of the WPD loop are modulated by the formation of weak molecular interactions, where perturbations of these interactions modulate the conformational equilibrium landscape. The point mutants in the WPD loop alter the loop equilibrium position from a predominantly open state (P185A) to 50:50 (F182A), 35:65 (P188A), and predominantly closed states (T177A and P188A). Surprisingly, there is no correlation between the observed catalytic rates in the loop mutants and changes to the WPD loop equilibrium position. Rather, we observe a strong correlation between the rate of dephosphorylation of the phosphocysteine enzyme intermediate and uniform millisecond motions, not only within the loop but also in the adjacent alpha-helical domain of PTP1B. Thus, the control of loop motion and thereby catalytic activity is dispersed and resides within not only the loop sequence but also the surrounding protein architecture. This has broad implications for the general mechanistic understanding of enzyme reactions and the role that flexible loops play in the catalytic cycle.

-	~~Authors~~:	+	Uncovering the Molecular Interactions in the Catalytic Loop That Modulate the Conformational Dynamics in Protein Tyrosine Phosphatase 1B.,Cui DS, Lipchock JM, Brookner D, Loria JP J Am Chem Soc. 2019 Aug 5. doi: 10.1021/jacs.9b04470. PMID:31339043<ref>PMID:31339043</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6pha" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Protein-tyrosine-phosphatase]]
		+	[[Category: Cui, D S]]
		+	[[Category: Lipchock, J M]]
		+	[[Category: Loria, J P]]
		+	[[Category: Hydrolase]]
		+	[[Category: Multiconformer]]
		+	[[Category: Ptp]]
		+	[[Category: Ptp1b]]
		+	[[Category: Signaling protein]]

OCA at 04:24, 24 July 2019

OCA — Wed, 24 Jul 2019 04:24:22 GMT

←Older revision		Revision as of 04:24, 24 July 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6pha is ON HOLD	+	The entry 6pha is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6pha" [edit=sysop:move=sysop]

OCA — Wed, 03 Jul 2019 04:20:35 GMT

Protected "6pha" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:20, 3 July 2019

OCA: New page: '''Unreleased structure''' The entry 6pha is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 03 Jul 2019 04:20:33 GMT

New page: '''Unreleased structure''' The entry 6pha is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6pha is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]