6drb - Revision history

OCA at 06:13, 11 October 2023

2023-10-11T06:13:01Z

←Older revision		Revision as of 06:13, 11 October 2023
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	<StructureSection load='6drb' size='340' side='right'caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='6drb' size='340' side='right'caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus~~ pestis~~" (lehmann and neumann 1896) migula 1900~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6DRB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Yersinia_pestis Yersinia pestis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DRB FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=WO4:TUNGSTATE(VI)ION'>WO4</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]] 2.745Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Related_structure~~\|~~Related:]]</b></td><td class="sblockDat">[[6dr9\|6dr9~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=WO4:TUNGSTATE(VI)ION'>WO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>yopH, YPCD1.67c ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~632~~ "~~Bacillus pestis~~" (~~Lehmann and Neumann 1896) Migula 1900]~~)</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=6drb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6drb OCA], [https://pdbe.org/6drb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6drb RCSB], [https://www.ebi.ac.uk/pdbsum/6drb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6drb 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=6drb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6drb OCA], [~~http~~://pdbe.org/6drb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6drb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6drb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6drb ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/O68720_YERPE O68720_YERPE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hengge, A C~~]]	+	[[Category: Yersinia pestis]]
-	[[Category: ~~Johnson, S J~~]]	+	[[Category: Hengge AC]]
-	[[Category: ~~Morales, Y~~]]	+	[[Category: Johnson SJ]]
-	[[Category: ~~Hydrolase]]~~	+	[[Category: Morales Y]]
-	~~[[Category: Phosphatase]]~~	+
-	~~[[Category: Ptp]]~~	+
-	~~[[Category: Ptpase]]~~	+
-	~~[[Category: Yoph~~]]	+

OCA at 08:34, 27 November 2019

2019-11-27T08:34:09Z

←Older revision		Revision as of 08:34, 27 November 2019
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	==Crystal Structure of the YopH PTP1B WPD loop Chimera 3 PTPase bound to tungstate==		==Crystal Structure of the YopH PTP1B WPD loop Chimera 3 PTPase bound to tungstate==
-	<StructureSection load='6drb' size='340' side='right' caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>	+	<StructureSection load='6drb' size='340' side='right'caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DRB FirstGlance]. <br>		<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DRB FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Hengge, A C]]		[[Category: Hengge, A C]]
	[[Category: Johnson, S J]]		[[Category: Johnson, S J]]

OCA at 10:29, 5 September 2018

2018-09-05T10:29:38Z

←Older revision		Revision as of 10:29, 5 September 2018
Line 3:		Line 3:
	<StructureSection load='6drb' size='340' side='right' caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='6drb' size='340' side='right' caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DRB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DRB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=WO4:TUNGSTATE(VI)ION'>WO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=WO4:TUNGSTATE(VI)ION'>WO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6dr9\|6dr9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6dr9\|6dr9]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">yopH, YPCD1.67c ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900])</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=6drb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6drb OCA], [http://pdbe.org/6drb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6drb RCSB], [http://www.ebi.ac.uk/pdbsum/6drb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6drb 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=6drb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6drb OCA], [http://pdbe.org/6drb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6drb RCSB], [http://www.ebi.ac.uk/pdbsum/6drb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6drb ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:28, 29 August 2018

2018-08-29T07:28:10Z

←Older revision		Revision as of 07:28, 29 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6drb is ~~ON HOLD until Paper~~ Publication	+	==Crystal Structure of the YopH PTP1B WPD loop Chimera 3 PTPase bound to tungstate==
		+	<StructureSection load='6drb' size='340' side='right' caption='[[6drb]], [[Resolution\|resolution]] 2.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6drb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DRB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DRB FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=WO4:TUNGSTATE(VI)ION'>WO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6dr9\|6dr9]]</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=6drb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6drb OCA], [http://pdbe.org/6drb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6drb RCSB], [http://www.ebi.ac.uk/pdbsum/6drb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6drb ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	To study factors that affect WPD-loop motion in protein tyrosine phosphatases (PTPs), a chimera of PTP1B and YopH was created by transposing the WPD loop from PTP1B to YopH. Several subsequent mutations proved to be necessary to obtain a soluble, active enzyme. That chimera, termed chimera 3, retains productive WPD-loop motions and general acid catalysis with a pH dependency similar to that of the native enzymes. Kinetic isotope effects show the mechanism and transition state for phosphoryl transfer are unaltered. Catalysis of the chimera is slower than that of either of its parent enzymes, although its rate is comparable to those of most native PTPs. X-ray crystallography and nuclear magnetic resonance were used to probe the structure and dynamics of chimera 3. The chimera's structure was found to sample an unproductive hyper-open conformation of its WPD loop, a geometry that has not been observed in either of the parents or in other native PTPs. The reduced catalytic rate is attributed to the protein's sampling of this conformation in solution, reducing the fraction in the catalytically productive loop-closed conformation.

-	~~Authors: Morales~~, Y., Johnson, S.J.~~, Hengge, A~~.C.	+	A YopH PTP1B Chimera Shows the Importance of the WPD-Loop Sequence to the Activity, Structure, and Dynamics of Protein Tyrosine Phosphatases.,Moise G, Morales Y, Beaumont V, Caradonna T, Loria JP, Johnson SJ, Hengge AC Biochemistry. 2018 Aug 28. doi: 10.1021/acs.biochem.8b00663. PMID:30110154<ref>PMID:30110154</ref>

-	~~Description: Crystal Structure~~ of the ~~YopH PTP1B WPD loop Chimera 3 PTPase bound to tungstate~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6drb" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Hengge, A C]]
		+	[[Category: Johnson, S J]]
	[[Category: Morales, Y]]		[[Category: Morales, Y]]
-	[[Category: ~~Hengge, A.C~~]]	+	[[Category: Hydrolase]]
-	[[Category: ~~Johnson, S.J~~]]	+	[[Category: Phosphatase]]
		+	[[Category: Ptp]]
		+	[[Category: Ptpase]]
		+	[[Category: Yoph]]

OCA at 05:21, 18 July 2018

2018-07-18T05:21:28Z

←Older revision		Revision as of 05:21, 18 July 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Morales, Y., Johnson, S.J., Hengge, A.C.		Authors: Morales, Y., Johnson, S.J., Hengge, A.C.

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

2018-06-20T04:11:40Z

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

←Older revision

Revision as of 04:11, 20 June 2018

OCA: New page: '''Unreleased structure''' The entry 6drb is ON HOLD Authors: Morales, Y., Johnson, S.J., Hengge, A.C. Description: Crystal Structure of the YopH PTP1B WPD loop Chimera 3 PTPase bound ...

2018-06-20T04:11:38Z

New page: '''Unreleased structure''' The entry 6drb is ON HOLD Authors: Morales, Y., Johnson, S.J., Hengge, A.C. Description: Crystal Structure of the YopH PTP1B WPD loop Chimera 3 PTPase bound ...

New page

'''Unreleased structure'''

The entry 6drb is ON HOLD

Authors: Morales, Y., Johnson, S.J., Hengge, A.C.

Description: Crystal Structure of the YopH PTP1B WPD loop Chimera 3 PTPase bound to tungstate
[[Category: Unreleased Structures]]
[[Category: Morales, Y]]
[[Category: Hengge, A.C]]
[[Category: Johnson, S.J]]