6krm - Revision history

OCA at 10:40, 22 November 2023

OCA — Wed, 22 Nov 2023 10:40:54 GMT

←Older revision		Revision as of 10:40, 22 November 2023
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	==Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant==		==Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant==
-	<StructureSection load='6krm' size='340' side='right'caption='[[6krm]]' scene=''>	+	<StructureSection load='6krm' size='340' side='right'caption='[[6krm]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KRM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6krm]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeropyrum_pernix_K1 Aeropyrum pernix K1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KRM FirstGlance]. <br>
-	</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=6krm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6krm OCA], [https://pdbe.org/6krm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6krm RCSB], [https://www.ebi.ac.uk/pdbsum/6krm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6krm ProSAT]</span></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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</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=6krm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6krm OCA], [https://pdbe.org/6krm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6krm RCSB], [https://www.ebi.ac.uk/pdbsum/6krm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6krm ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TDXH_AERPE TDXH_AERPE]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The quaternary structure of peroxiredoxin from Aeropyrum pernix K1 (ApPrx) is a decamer, in which five homodimers are assembled in a pentagonal ring through hydrophobic interactions. In this study, we determined the amino acid (AA) residues of ApPrx crucial for forming the decamer using AA mutations. The ApPrx0Cys mutant, wherein all cysteine residues were mutated to serine, was prepared as a model protein to remove the influence of the redox states of the cysteines on its assembling behavior. The boundary between each homodimer of ApPrx0Cys contains characteristic aromatic AA residues forming hydrophobic interactions: F46, F80, W88, W210, and W211. We found that a single mutation of F46, F80, or W210 to alanine completely disassembled the ApPrx0Cys decamer to homodimers, which was clarified by gel-filtration chromatography and dynamic light scattering measurements. F46A, F80A, and W210A mutants lacked only one aromatic ring compared with ApPrx0Cys, indicating that the assembly is very sensitive to the surface structure of the protein. X-ray structures revealed two mechanisms of disassembly of the ApPrx decamer: loss of hydrophobicity between homodimers and flip of the arm domain. The AA residues targeted in this study are well conserved in ring-type Prx proteins, suggesting the importance of these residues in the assembly. This study demonstrates the sensitivity and modifiability of peroxiredoxin assembly by a simple AA mutation.
		+
		+	Disassembly of the ring-type decameric structure of peroxiredoxin from Aeropyrum pernix K1 by amino acid mutation.,Himiyama T, Nakamura T Protein Sci. 2020 May;29(5):1138-1147. doi: 10.1002/pro.3837. Epub 2020 Feb 12. PMID:32022337<ref>PMID:32022337</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6krm" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]		*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aeropyrum pernix K1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Himiyama T]]		[[Category: Himiyama T]]
	[[Category: Nakamura T]]		[[Category: Nakamura T]]

OCA at 08:49, 18 February 2021

OCA — Thu, 18 Feb 2021 08:49:01 GMT

←Older revision		Revision as of 08:49, 18 February 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6krm is ~~ON HOLD until Paper Publication~~	+	==Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant==
		+	<StructureSection load='6krm' size='340' side='right'caption='[[6krm]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KRM FirstGlance]. <br>
		+	</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=6krm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6krm OCA], [https://pdbe.org/6krm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6krm RCSB], [https://www.ebi.ac.uk/pdbsum/6krm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6krm ProSAT]</span></td></tr>
		+	</table>

-	~~Authors: Himiyama, T., Nakamura, T.~~	+	==See Also==
-		+	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
-	~~Description:~~ Peroxiredoxin ~~from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant~~	+	__TOC__
-	[[Category: ~~Unreleased~~ Structures]]	+	</StructureSection>
-	[[Category: Himiyama, T]]	+	[[Category: Large Structures]]
-	[[Category: Nakamura, T]]	+	[[Category: Himiyama T]]
		+	[[Category: Nakamura T]]

OCA at 06:40, 2 October 2019

OCA — Wed, 02 Oct 2019 06:40:44 GMT

←Older revision		Revision as of 06:40, 2 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Himiyama, T., Nakamura, T.		Authors: Himiyama, T., Nakamura, T.

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

OCA — Wed, 28 Aug 2019 13:40:31 GMT

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

←Older revision

Revision as of 13:40, 28 August 2019

OCA: New page: '''Unreleased structure''' The entry 6krm is ON HOLD Authors: Himiyama, T., Nakamura, T. Description: Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant [[Category: Unrele...

OCA — Wed, 28 Aug 2019 13:40:30 GMT

New page: '''Unreleased structure''' The entry 6krm is ON HOLD Authors: Himiyama, T., Nakamura, T. Description: Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant [[Category: Unrele...

New page

'''Unreleased structure'''

The entry 6krm is ON HOLD

Authors: Himiyama, T., Nakamura, T.

Description: Peroxiredoxin from Aeropyrum pernix K1 (ApPrx) 0Cys F46A mutant
[[Category: Unreleased Structures]]
[[Category: Himiyama, T]]
[[Category: Nakamura, T]]