5cyf - Revision history

OCA at 08:41, 27 September 2023

2023-09-27T08:41:33Z

←Older revision		Revision as of 08:41, 27 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Schistosoma_mansoni Schistosoma mansoni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CYF FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Schistosoma_mansoni Schistosoma mansoni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CYF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</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]] 1.983Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [https://pdbe.org/5cyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [https://www.ebi.ac.uk/pdbsum/5cyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cyf 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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [https://pdbe.org/5cyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [https://www.ebi.ac.uk/pdbsum/5cyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cyf ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:14, 21 June 2023

2023-06-21T10:14:22Z

←Older revision		Revision as of 10:14, 21 June 2023
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	<StructureSection load='5cyf' size='340' side='right'caption='[[5cyf]], [[Resolution\|resolution]] 1.98Å' scene=''>		<StructureSection load='5cyf' size='340' side='right'caption='[[5cyf]], [[Resolution\|resolution]] 1.98Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Blood_fluke Blood fluke~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5CYF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Schistosoma_mansoni Schistosoma mansoni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CYF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cyg\|5cyg]]</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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [https://pdbe.org/5cyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [https://www.ebi.ac.uk/pdbsum/5cyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cyf ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Smp_082420 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6183 Blood fluke])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_phosphorylase Uridine phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.3 2.4.2.3] </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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [~~http~~://pdbe.org/5cyf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5cyf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5cyf ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/UPPB_SCHMA UPPB_SCHMA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Blood fluke]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Uridine phosphorylase~~]]	+	[[Category: Schistosoma mansoni]]
-	[[Category: DeMarco, R]]	+	[[Category: DeMarco R]]
-	[[Category: Pereira~~, H M~~]]	+	[[Category: Pereira HM]]
-	[[Category: Romanello, L]]	+	[[Category: Romanello L]]
-	[[Category: Torini~~, J R]]~~	+	[[Category: Torini JR]]
-	~~[[Category: Transferase~~]]	+

OCA at 06:20, 17 April 2019

2019-04-17T06:20:01Z

←Older revision		Revision as of 06:20, 17 April 2019
Line 1:		Line 1:

	==Crystal structure of isoform 2 of uridine phosphorylase from Schistosoma mansoni in complex with citrate==		==Crystal structure of isoform 2 of uridine phosphorylase from Schistosoma mansoni in complex with citrate==
-	<StructureSection load='5cyf' size='340' side='right' caption='[[5cyf]], [[Resolution\|resolution]] 1.98Å' scene=''>	+	<StructureSection load='5cyf' size='340' side='right'caption='[[5cyf]], [[Resolution\|resolution]] 1.98Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CYF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Blood_fluke Blood fluke]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CYF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cyg\|5cyg]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cyg\|5cyg]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Smp_082420 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6183 Blood fluke])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_phosphorylase Uridine phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.3 2.4.2.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_phosphorylase Uridine phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.3 2.4.2.3] </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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [http://pdbe.org/5cyf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [http://www.ebi.ac.uk/pdbsum/5cyf PDBsum]</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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [http://pdbe.org/5cyf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [http://www.ebi.ac.uk/pdbsum/5cyf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5cyf ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Blood fluke]]
		+	[[Category: Large Structures]]
	[[Category: Uridine phosphorylase]]		[[Category: Uridine phosphorylase]]
	[[Category: DeMarco, R]]		[[Category: DeMarco, R]]

OCA at 03:47, 11 May 2016

2016-05-11T03:47:04Z

←Older revision		Revision as of 03:47, 11 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5cyf is ~~ON HOLD until Jul 30 2017~~	+	==Crystal structure of isoform 2 of uridine phosphorylase from Schistosoma mansoni in complex with citrate==
		+	<StructureSection load='5cyf' size='340' side='right' caption='[[5cyf]], [[Resolution\|resolution]] 1.98Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5cyf]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CYF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CYF FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cyg\|5cyg]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_phosphorylase Uridine phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.3 2.4.2.3] </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=5cyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cyf OCA], [http://pdbe.org/5cyf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cyf RCSB], [http://www.ebi.ac.uk/pdbsum/5cyf PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Reports of Schistosoma mansoni strains resistant to praziquantel, the only therapeutic strategy available for the treatment of schistosomiasis, have motivated the scientific community towards the search for new possible therapies. Biochemical characterization of the parasite's metabolism is an essential component for the rational development of new therapeutic alternatives. One of the so far uncharacterized enzymes is uridine phosphorylase (UP) (EC 2.4.2.3), for which the parasite genome presents two isoforms (SmUPa and SmUPb) that share 92% sequence identity. In this paper, we present crystal structures for SmUPa and SmUPb in their free states as well as bound to different ligands. This we have complemented by enzyme kinetic characterization and phylogenetic analyses. Both enzymes present an overall fold and active site structure similar to other known UPs. The kinetic analyses showed conclusively that SmUPa is a regular uridine phosphorylase but by contrast SmUPb presented no detectable activity. This is particularly noteworthy given the high level of sequence identity between the two isoforms and is probably the result of the significant differences observed for SmUPb in the vicinity of the active site itself, suggesting that it is not a UP at all. On the other hand, it was not possible to identify an alternative function for SmUPb, although our phylogenetic analyses and expression data suggest that SmUPb is still functional and plays a role in parasite metabolism. The unusual UPb isoform may open up new opportunities for understanding unique features of S. mansoni metabolism.

-	~~Authors: Romanello, L~~., Torini, ~~J.R.~~, ~~DeMarco~~, R., Pereira, H.M.	+	Analysis of two Schistosoma mansoni uridine phosphorylases isoforms suggests the emergence of a protein with a non-canonical function.,da Silva Neto AM, Torini de Souza JR, Romanelo L, Cassago A, Serrao VH, DeMarco R, Brandao-Neto J, Garratt RC, Pereira HD Biochimie. 2016 Feb 18. pii: S0300-9084(16)00050-X. doi:, 10.1016/j.biochi.2016.02.007. PMID:26898674<ref>PMID:26898674</ref>

-	~~Description: Crystal structure~~ of ~~isoform 2~~ of ~~uridine phosphorylase from Schistosoma mansoni in complex with citrate~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Torini~~, J.R]]	+	<div class="pdbe-citations 5cyf" style="background-color:#fffaf0;"></div>
-	[[Category: Pereira, H.M]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Uridine phosphorylase]]
		+	[[Category: DeMarco, R]]
		+	[[Category: Pereira, H M]]
	[[Category: Romanello, L]]		[[Category: Romanello, L]]
-	[[Category: ~~Demarco~~, R]]	+	[[Category: Torini, J R]]
		+	[[Category: Transferase]]

OCA at 10:47, 16 December 2015

2015-12-16T10:47:19Z

←Older revision		Revision as of 10:47, 16 December 2015
Line 7:		Line 7:
	Description: Crystal structure of isoform 2 of uridine phosphorylase from Schistosoma mansoni in complex with citrate		Description: Crystal structure of isoform 2 of uridine phosphorylase from Schistosoma mansoni in complex with citrate
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Pereira, H.M]]
-	[[Category: Demarco, R]]
	[[Category: Torini, J.R]]		[[Category: Torini, J.R]]
		+	[[Category: Pereira, H.M]]
	[[Category: Romanello, L]]		[[Category: Romanello, L]]
		+	[[Category: Demarco, R]]

OCA at 11:11, 20 August 2015

2015-08-20T11:11:15Z

←Older revision		Revision as of 11:11, 20 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5cyf is ON HOLD	+	The entry 5cyf is ON HOLD until Jul 30 2017

	Authors: Romanello, L., Torini, J.R., DeMarco, R., Pereira, H.M.		Authors: Romanello, L., Torini, J.R., DeMarco, R., Pereira, H.M.

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

2015-08-05T19:10:27Z

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

←Older revision

Revision as of 19:10, 5 August 2015

OCA: New page: '''Unreleased structure''' The entry 5cyf is ON HOLD Authors: Romanello, L., Torini, J.R., DeMarco, R., Pereira, H.M. Description: Crystal structure of isoform 2 of uridine phosphoryla...

2015-08-05T19:10:25Z

New page: '''Unreleased structure''' The entry 5cyf is ON HOLD Authors: Romanello, L., Torini, J.R., DeMarco, R., Pereira, H.M. Description: Crystal structure of isoform 2 of uridine phosphoryla...

New page

'''Unreleased structure'''

The entry 5cyf is ON HOLD

Authors: Romanello, L., Torini, J.R., DeMarco, R., Pereira, H.M.

Description: Crystal structure of isoform 2 of uridine phosphorylase from Schistosoma mansoni in complex with citrate
[[Category: Unreleased Structures]]
[[Category: Pereira, H.M]]
[[Category: Demarco, R]]
[[Category: Torini, J.R]]
[[Category: Romanello, L]]