7qpo - Revision history

OCA at 13:20, 1 February 2024

OCA — Thu, 01 Feb 2024 13:20:52 GMT

←Older revision		Revision as of 13:20, 1 February 2024
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	==Crystal structure of human trans-3-Hydroxy-L-proline dehydratase==		==Crystal structure of human trans-3-Hydroxy-L-proline dehydratase==
-	<StructureSection load='7qpo' size='340' side='right'caption='[[7qpo]]' scene=''>	+	<StructureSection load='7qpo' size='340' side='right'caption='[[7qpo]], [[Resolution\|resolution]] 3.00Å' 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=7QPO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7qpo]] is a 2 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=7QPO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPO 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=7qpo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpo OCA], [https://pdbe.org/7qpo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpo RCSB], [https://www.ebi.ac.uk/pdbsum/7qpo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpo 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]] 3Å</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=7qpo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpo OCA], [https://pdbe.org/7qpo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpo RCSB], [https://www.ebi.ac.uk/pdbsum/7qpo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpo ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/T3HPD_HUMAN T3HPD_HUMAN] Catalyzes the dehydration of trans-3-hydroxy-L-proline to Delta(1)-pyrroline-2-carboxylate (Pyr2C). May be required to degrade trans-3-hydroxy-L-proline from the diet and originating from the degradation of proteins such as collagen-IV that contain it.<ref>PMID:22528483</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Computational methods for protein structure prediction have made significant strides forward, as evidenced by the last development of the neural network AlphaFold, which outperformed the CASP14 competitors by consistently predicting the structure of target proteins. Here we show an integrated structural investigation that combines the AlphaFold and crystal structures of human trans-3-Hydroxy-l-proline dehydratase, an enzyme involved in hydroxyproline catabolism and whose structure had never been reported before, identifying a structural element, absent in the AlphaFold model but present in the crystal structure, that was subsequently proved to be functionally relevant. Although the AlphaFold model lacked information on protein oligomerization, the native dimer was reconstructed using template-based and ab initio computational approaches. Moreover, molecular phasing of the diffraction data using the AlphaFold model resulted in dimer reconstruction and straightforward structure solution. Our work adds to the integration of AlphaFold with experimental structural and functional data for protein analysis, crystallographic phasing and structure solution.
		+
		+	The integration of AlphaFold-predicted and crystal structures of human trans-3-hydroxy-l-proline dehydratase reveals a regulatory catalytic mechanism.,Ferrario E, Miggiano R, Rizzi M, Ferraris DM Comput Struct Biotechnol J. 2022 Jul 18;20:3874-3883. doi:, 10.1016/j.csbj.2022.07.027. eCollection 2022. PMID:35891782<ref>PMID:35891782</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7qpo" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Ferrario E]]		[[Category: Ferrario E]]

OCA at 06:18, 18 August 2022

OCA — Thu, 18 Aug 2022 06:18:44 GMT

←Older revision		Revision as of 06:18, 18 August 2022
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-	'''Unreleased structure'''

-	~~The entry 7qpo is ON HOLD until Paper Publication~~	+	==Crystal structure of human trans-3-Hydroxy-L-proline dehydratase==
-		+	<StructureSection load='7qpo' size='340' side='right'caption='[[7qpo]]' scene=''>
-	~~Authors: Ferrario, E., Miggiano, R., Rizzi, M., Ferraris, D.M.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QPO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPO FirstGlance]. <br>
-	~~Description:~~ Crystal structure of human trans-3-Hydroxy-L-proline dehydratase	+	</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=7qpo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpo OCA], [https://pdbe.org/7qpo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpo RCSB], [https://www.ebi.ac.uk/pdbsum/7qpo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpo ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Rizzi~~, M]]	+	__TOC__
-	[[Category: Ferrario, E]]	+	</StructureSection>
-	[[Category: Ferraris~~, D.M~~]]	+	[[Category: Large Structures]]
-	[[Category: Miggiano, R]]	+	[[Category: Ferrario E]]
		+	[[Category: Ferraris DM]]
		+	[[Category: Miggiano R]]
		+	[[Category: Rizzi M]]

OCA at 06:05, 9 February 2022

OCA — Wed, 09 Feb 2022 06:05:42 GMT

←Older revision		Revision as of 06:05, 9 February 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7qpo is ON HOLD	+	The entry 7qpo is ON HOLD until Paper Publication

	Authors: Ferrario, E., Miggiano, R., Rizzi, M., Ferraris, D.M.		Authors: Ferrario, E., Miggiano, R., Rizzi, M., Ferraris, D.M.

OCA: Protected "7qpo" [edit=sysop:move=sysop]

OCA — Wed, 12 Jan 2022 08:31:40 GMT

Protected "7qpo" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:31, 12 January 2022

OCA: New page: '''Unreleased structure''' The entry 7qpo is ON HOLD Authors: Ferrario, E., Miggiano, R., Rizzi, M., Ferraris, D.M. Description: Crystal structure of human trans-3-Hydroxy-L-proline de...

OCA — Wed, 12 Jan 2022 08:31:39 GMT

New page: '''Unreleased structure''' The entry 7qpo is ON HOLD Authors: Ferrario, E., Miggiano, R., Rizzi, M., Ferraris, D.M. Description: Crystal structure of human trans-3-Hydroxy-L-proline de...

New page

'''Unreleased structure'''

The entry 7qpo is ON HOLD

Authors: Ferrario, E., Miggiano, R., Rizzi, M., Ferraris, D.M.

Description: Crystal structure of human trans-3-Hydroxy-L-proline dehydratase
[[Category: Unreleased Structures]]
[[Category: Rizzi, M]]
[[Category: Ferrario, E]]
[[Category: Ferraris, D.M]]
[[Category: Miggiano, R]]