5vwn - Revision history

OCA at 14:01, 4 October 2023

OCA — Wed, 04 Oct 2023 14:01:14 GMT

←Older revision		Revision as of 14:01, 4 October 2023
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	<StructureSection load='5vwn' size='340' side='right'caption='[[5vwn]], [[Resolution\|resolution]] 1.74Å' scene=''>		<StructureSection load='5vwn' size='340' side='right'caption='[[5vwn]], [[Resolution\|resolution]] 1.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vwn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VWN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5VWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vwn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichomonas_vaginalis Trichomonas vaginalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VWN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.74Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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=5vwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vwn OCA], [~~http~~://pdbe.org/5vwn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vwn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vwn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vwn 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=5vwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vwn OCA], [https://pdbe.org/5vwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vwn RCSB], [https://www.ebi.ac.uk/pdbsum/5vwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vwn ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A2FT29_TRIV3 A2FT29_TRIV3]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 5vwn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5vwn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Triose phosphate isomerase 3D structures\|Triose phosphate isomerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Triose-phosphate isomerase~~]]	+	[[Category: Trichomonas vaginalis]]
-	[[Category: Brieba~~, L G~~]]	+	[[Category: Brieba LG]]
-	[[Category: Estrella-Hernandez, P]]	+	[[Category: Estrella-Hernandez P]]
-	[[Category: Jimenez-Sandoval, P]]	+	[[Category: Jimenez-Sandoval P]]
-	[[Category: Lara-Gonzalez, S]]	+	[[Category: Lara-Gonzalez S]]
-	[[Category: Rojas-Mendez, K]]	+	[[Category: Rojas-Mendez K]]
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Loop deletion~~]]	+

OCA at 08:45, 30 September 2020

OCA — Wed, 30 Sep 2020 08:45:13 GMT

←Older revision		Revision as of 08:45, 30 September 2020
Line 1:		Line 1:

	==Triosephosphate isomerases deletion loop 3 from Trichomonas vaginalis==		==Triosephosphate isomerases deletion loop 3 from Trichomonas vaginalis==
-	<StructureSection load='5vwn' size='340' side='right' caption='[[5vwn]], [[Resolution\|resolution]] 1.74Å' scene=''>	+	<StructureSection load='5vwn' size='340' side='right'caption='[[5vwn]], [[Resolution\|resolution]] 1.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vwn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VWN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vwn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VWN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5VWN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1] </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=5vwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vwn OCA], [http://pdbe.org/5vwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vwn RCSB], [http://www.ebi.ac.uk/pdbsum/5vwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vwn 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=5vwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vwn OCA], [http://pdbe.org/5vwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vwn RCSB], [http://www.ebi.ac.uk/pdbsum/5vwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vwn ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Triose-phosphate isomerase]]		[[Category: Triose-phosphate isomerase]]
	[[Category: Brieba, L G]]		[[Category: Brieba, L G]]

OCA at 05:54, 4 April 2018

OCA — Wed, 04 Apr 2018 05:54:28 GMT

←Older revision		Revision as of 05:54, 4 April 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5vwn is ~~ON HOLD until Paper~~ Publication	+	==Triosephosphate isomerases deletion loop 3 from Trichomonas vaginalis==
		+	<StructureSection load='5vwn' size='340' side='right' caption='[[5vwn]], [[Resolution\|resolution]] 1.74Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5vwn]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VWN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1] </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=5vwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vwn OCA], [http://pdbe.org/5vwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vwn RCSB], [http://www.ebi.ac.uk/pdbsum/5vwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vwn ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The protozoan parasite Trichomonas vaginalis contains two nearly identical triosephosphate isomerases (TvTIMs) that dissociate into stable monomers and dimerize upon substrate binding. Herein, we compare the role of the "ball and socket" and loop 3 interactions in substrate assisted dimer assembly in both TvTIMs. We found that point mutants at the "ball" are only 39 and 29-fold less catalytically active than their corresponding wild-type counterparts, whereas Deltaloop 3 deletions are 1502 and 9400-fold less active. Point and deletion mutants dissociate into stable monomers. However, point mutants assemble as catalytic competent dimers upon binding of the transition state substrate analog PGH, whereas loop 3 deletions remain monomeric. A comparison between crystal structures of point and loop 3 deletion monomeric mutants illustrates that the catalytic residues in point mutants and wild-type TvTIMs are maintained in the same orientation, whereas the catalytic residues in deletion mutants show an increase in thermal mobility and present structural disorder that may hamper their catalytic role. The high enzymatic activity present in monomeric point mutants correlates with the formation of dimeric TvTIMs upon substrate binding. In contrast, the low activity and lack of dimer assembly in deletion mutants suggests a role of loop 3 in promoting the formation of the active site as well as dimer assembly. Our results suggest that in TvTIMs the active site is assembled during dimerization and that the integrity of loop 3 and ball and socket residues is crucial to stabilize the dimer.

-	~~Authors: Lara~~-~~Gonzalez~~, S., ~~Rojas~~-~~Mendez~~, K., ~~Jimenez~~-~~Sandoval~~, P., ~~Estrella~~-~~Hernandez~~, P., Brieba, L.G.	+	A competent catalytic active site is necessary for substrate induced dimer assembly in triosephosphate isomerase.,Jimenez-Sandoval P, Vique-Sanchez JL, Hidalgo ML, Velazquez-Juarez G, Diaz-Quezada C, Arroyo-Navarro LF, Moran GM, Fattori J, Jessica Diaz-Salazar A, Rudino-Pinera E, Sotelo-Mundo R, Figueira ACM, Lara-Gonzalez S, Benitez-Cardoza CG, Brieba LG Biochim Biophys Acta. 2017 Nov;1865(11 Pt A):1423-1432. doi:, 10.1016/j.bbapap.2017.07.014. Epub 2017 Aug 9. PMID:28803140<ref>PMID:28803140</ref>

-	~~Description~~: ~~Triosephosphate isomerases deletion loop 3 from Trichomonas vaginalis~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5vwn" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Triose-phosphate isomerase]]
		+	[[Category: Brieba, L G]]
	[[Category: Estrella-Hernandez, P]]		[[Category: Estrella-Hernandez, P]]
-	[[Category: Brieba, L.G]]
-	[[Category: Rojas-Mendez, K]]
-	[[Category: Lara-Gonzalez, S]]
	[[Category: Jimenez-Sandoval, P]]		[[Category: Jimenez-Sandoval, P]]
		+	[[Category: Lara-Gonzalez, S]]
		+	[[Category: Rojas-Mendez, K]]
		+	[[Category: Isomerase]]
		+	[[Category: Loop deletion]]

OCA: Protected "5vwn" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 14:15:11 GMT

Protected "5vwn" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:15, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5vwn is ON HOLD until Paper Publication Authors: Lara-Gonzalez, S., Rojas-Mendez, K., Jimenez-Sandoval, P., Estrella-Hernandez, P., Brieba, L.G. De...

OCA — Wed, 27 Sep 2017 14:15:10 GMT

New page: '''Unreleased structure''' The entry 5vwn is ON HOLD until Paper Publication Authors: Lara-Gonzalez, S., Rojas-Mendez, K., Jimenez-Sandoval, P., Estrella-Hernandez, P., Brieba, L.G. De...

New page

'''Unreleased structure'''

The entry 5vwn is ON HOLD until Paper Publication

Authors: Lara-Gonzalez, S., Rojas-Mendez, K., Jimenez-Sandoval, P., Estrella-Hernandez, P., Brieba, L.G.

Description: Triosephosphate isomerases deletion loop 3 from Trichomonas vaginalis
[[Category: Unreleased Structures]]
[[Category: Estrella-Hernandez, P]]
[[Category: Brieba, L.G]]
[[Category: Rojas-Mendez, K]]
[[Category: Lara-Gonzalez, S]]
[[Category: Jimenez-Sandoval, P]]