5hr3 - Revision history

OCA at 10:51, 16 August 2023

OCA — Wed, 16 Aug 2023 10:51:25 GMT

←Older revision		Revision as of 10:51, 16 August 2023
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	<StructureSection load='5hr3' size='340' side='right'caption='[[5hr3]], [[Resolution\|resolution]] 1.10Å' scene=''>		<StructureSection load='5hr3' size='340' side='right'caption='[[5hr3]], [[Resolution\|resolution]] 1.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hr3]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5HR3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hr3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HR3 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>~~, ~~<scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.101Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5hr2\|5hr2]], [[5hr1\|5hr1]], [[5hr0\|5hr0]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">trxA, BN17_37301, ECs4714 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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=5hr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr3 OCA], [https://pdbe.org/5hr3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hr3 RCSB], [https://www.ebi.ac.uk/pdbsum/5hr3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hr3 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=5hr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr3 OCA], [~~http~~://pdbe.org/5hr3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5hr3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5hr3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5hr3 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/THIO_ECOLI THIO_ECOLI] Participates in various redox reactions through the reversible oxidation of its active center dithiol to a disulfide and catalyzes dithiol-disulfide exchange reactions.
	<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: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cousido-Siah, A]]	+	[[Category: Cousido-Siah A]]
-	[[Category: Howard~~, E I~~]]	+	[[Category: Howard EI]]
-	[[Category: Mitschler, A]]	+	[[Category: Mitschler A]]
-	[[Category: Noguera~~, M E~~]]	+	[[Category: Noguera ME]]
-	[[Category: Podjarny, A]]	+	[[Category: Podjarny A]]
-	[[Category: Santos, J]]	+	[[Category: Santos J]]
-	[[Category: Vazquez~~, D S]]~~	+	[[Category: Vazquez DS]]
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Thiol redox-reaction]]~~	+
-	~~[[Category: Thioredoxin~~]]	+

OCA at 08:28, 27 May 2020

OCA — Wed, 27 May 2020 08:28:32 GMT

←Older revision		Revision as of 08:28, 27 May 2020
Line 1:		Line 1:

	==Crystal structure of thioredoxin N106A mutant==		==Crystal structure of thioredoxin N106A mutant==
-	<StructureSection load='5hr3' size='340' side='right' caption='[[5hr3]], [[Resolution\|resolution]] 1.10Å' scene=''>	+	<StructureSection load='5hr3' size='340' side='right'caption='[[5hr3]], [[Resolution\|resolution]] 1.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5hr3]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR3 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5HR3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5hr3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5HR3 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hr2\|5hr2]], [[5hr1\|5hr1]], [[5hr0\|5hr0]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hr2\|5hr2]], [[5hr1\|5hr1]], [[5hr0\|5hr0]]</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=5hr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr3 OCA], [http://pdbe.org/5hr3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hr3 RCSB], [http://www.ebi.ac.uk/pdbsum/5hr3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hr3 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trxA, BN17_37301, ECs4714 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=5hr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr3 OCA], [http://pdbe.org/5hr3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hr3 RCSB], [http://www.ebi.ac.uk/pdbsum/5hr3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hr3 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 5hr3" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5hr3" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Thioredoxin 3D structures\|Thioredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Cousido-Siah, A]]		[[Category: Cousido-Siah, A]]
	[[Category: Howard, E I]]		[[Category: Howard, E I]]

OCA at 01:32, 11 March 2017

OCA — Sat, 11 Mar 2017 01:32:47 GMT

←Older revision		Revision as of 01:32, 11 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5hr3 is ~~ON HOLD until Apr 19 2018~~	+	==Crystal structure of thioredoxin N106A mutant==
		+	<StructureSection load='5hr3' size='340' side='right' caption='[[5hr3]], [[Resolution\|resolution]] 1.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5hr3]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HR3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HR3 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hr2\|5hr2]], [[5hr1\|5hr1]], [[5hr0\|5hr0]]</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=5hr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hr3 OCA], [http://pdbe.org/5hr3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hr3 RCSB], [http://www.ebi.ac.uk/pdbsum/5hr3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hr3 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Thioredoxin is a ubiquitous small protein that catalyzes redox reactions of protein thiols. Additionally, thioredoxin from E. coli (EcTRX) is a widely-used model for structure-function studies. In a previous paper, we characterized several single-point mutants of the C-terminal helix (CTH) that alter global stability of EcTRX. However, spectroscopic signatures and enzymatic activity for some of these mutants were found essentially unaffected. A comprehensive structural characterization at the atomic level of these near-invariant mutants can provide detailed information about structural variability of EcTRX. We address this point through the determination of the crystal structures of four point-mutants, whose mutations occurs within or near the CTH, namely L94A, E101G, N106A and L107A. These structures are mostly unaffected compared with the wild-type variant. Notably, the E101G mutant presents a large region with two alternative traces for the backbone of the same chain. It represents a significant shift in backbone positions. Enzymatic activity measurements and conformational dynamics studies monitored by NMR and molecular dynamic simulations show that E101G mutation results in a small effect in the structural features of the protein. We hypothesize that these alternative conformations represent samples of the native-state ensemble of EcTRX, specifically the magnitude and location of conformational heterogeneity.

-	~~Authors: Noguera, M~~.E., Vazquez, ~~D.S.~~, Howard, E~~.I.~~, Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J.	+	Structural variability of E. coli thioredoxin captured in the crystal structures of single-point mutants.,Noguera ME, Vazquez DS, Ferrer-Sueta G, Agudelo WA, Howard E, Rasia RM, Manta B, Cousido-Siah A, Mitschler A, Podjarny A, Santos J Sci Rep. 2017 Feb 9;7:42343. doi: 10.1038/srep42343. PMID:28181556<ref>PMID:28181556</ref>

-	~~Description: Crystal structure~~ of ~~thioredoxin N106A mutant~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category: Vazquez, D~~.S]]	+	<div class="pdbe-citations 5hr3" style="background-color:#fffaf0;"></div>
-	~~[[Category~~: ~~Noguera, M.E]]~~	+	== References ==
-	[[Category: ~~Podjarny~~, A]]	+	<references/>
-	[[Category: Howard, E.I]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Cousido-Siah, A]]
		+	[[Category: Howard, E I]]
	[[Category: Mitschler, A]]		[[Category: Mitschler, A]]
		+	[[Category: Noguera, M E]]
		+	[[Category: Podjarny, A]]
	[[Category: Santos, J]]		[[Category: Santos, J]]
-	[[Category: ~~Cousido-Siah~~, A]]	+	[[Category: Vazquez, D S]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Thiol redox-reaction]]
		+	[[Category: Thioredoxin]]

OCA at 13:28, 15 December 2016

OCA — Thu, 15 Dec 2016 13:28:19 GMT

←Older revision		Revision as of 13:28, 15 December 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5hr3 is ON HOLD until ~~Paper Publication~~	+	The entry 5hr3 is ON HOLD until Apr 19 2018

	Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J.		Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J.

OCA at 15:37, 10 February 2016

OCA — Wed, 10 Feb 2016 15:37:09 GMT

←Older revision		Revision as of 15:37, 10 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5hr3 is ON HOLD	+	The entry 5hr3 is ON HOLD until Paper Publication

	Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J.		Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J.

OCA: Protected "5hr3" [edit=sysop:move=sysop]

OCA — Wed, 03 Feb 2016 14:11:45 GMT

Protected "5hr3" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:11, 3 February 2016

OCA: New page: '''Unreleased structure''' The entry 5hr3 is ON HOLD Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J. Description: Crystal...

OCA — Wed, 03 Feb 2016 14:11:43 GMT

New page: '''Unreleased structure''' The entry 5hr3 is ON HOLD Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J. Description: Crystal...

New page

'''Unreleased structure'''

The entry 5hr3 is ON HOLD

Authors: Noguera, M.E., Vazquez, D.S., Howard, E.I., Cousido-Siah, A., Mitschler, A., Podjarny, A., Santos, J.

Description: Crystal structure of thioredoxin N106A mutant
[[Category: Unreleased Structures]]
[[Category: Vazquez, D.S]]
[[Category: Noguera, M.E]]
[[Category: Podjarny, A]]
[[Category: Howard, E.I]]
[[Category: Mitschler, A]]
[[Category: Santos, J]]
[[Category: Cousido-Siah, A]]