5x67 - Revision history

OCA at 07:54, 22 November 2023

OCA — Wed, 22 Nov 2023 07:54:31 GMT

←Older revision		Revision as of 07:54, 22 November 2023
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	<StructureSection load='5x67' size='340' side='right'caption='[[5x67]], [[Resolution\|resolution]] 2.13Å' scene=''>		<StructureSection load='5x67' size='340' side='right'caption='[[5x67]], [[Resolution\|resolution]] 2.13Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x67]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X67 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5X67 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x67]] 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=5X67 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5X67 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=7Z9:2~~-~~azanyl-6-methyl-5-pyridin-4-ylsulfanyl-3H-quinazolin-4-one'>7Z9</scene>~~, ~~<scene name='pdbligand=UMP:~~2~~-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</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]] 2.13Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5x4w\|5x4w]], [[5x4x\|5x4x]], [[5x4y\|5x4y]], [[5x5a\|5x5a]], [[5x5d\|5x5d]], [[5x5q\|5x5q]], [[5x66\|5x66]], [[5x69\|5x69]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7Z9:2-azanyl-6-methyl-5-pyridin-4-ylsulfanyl-3H-quinazolin-4-one'>7Z9</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity~~:~~</b~~></td><~~td class="sblockDat"><span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Thymidylate_synthase Thymidylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.45 2.1.1.45]~~ </~~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=5x67 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x67 OCA], [https://pdbe.org/5x67 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5x67 RCSB], [https://www.ebi.ac.uk/pdbsum/5x67 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5x67 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=5x67 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x67 OCA], [~~http~~://pdbe.org/5x67 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5x67 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5x67 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5x67 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TYSY_HUMAN TYSY_HUMAN]] Contributes to the de novo mitochondrial thymidylate biosynthesis pathway.<ref>PMID:21876188</ref>	+	[https://www.uniprot.org/uniprot/TYSY_HUMAN TYSY_HUMAN] Contributes to the de novo mitochondrial thymidylate biosynthesis pathway.<ref>PMID:21876188</ref>
	<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: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Thymidylate synthase]]~~	+	[[Category: Chen D]]
-	[[Category: Chen, D]]	+	[[Category: Jansson A]]
-	[[Category: Jansson, A]]	+	[[Category: Larsson A]]
-	[[Category: Larsson, A]]	+	[[Category: Nordlund P]]
-	[[Category: Nordlund, P]]	+
-	~~[[Category: Methyltransferase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:27, 7 October 2020

OCA — Wed, 07 Oct 2020 07:27:41 GMT

←Older revision		Revision as of 07:27, 7 October 2020
Line 1:		Line 1:

	==Human thymidylate synthase in complex with dUMP and nolatrexed==		==Human thymidylate synthase in complex with dUMP and nolatrexed==
-	<StructureSection load='5x67' size='340' side='right' caption='[[5x67]], [[Resolution\|resolution]] 2.13Å' scene=''>	+	<StructureSection load='5x67' size='340' side='right'caption='[[5x67]], [[Resolution\|resolution]] 2.13Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x67]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X67 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5X67 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x67]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X67 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5X67 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7Z9:2-azanyl-6-methyl-5-pyridin-4-ylsulfanyl-3H-quinazolin-4-one'>7Z9</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7Z9:2-azanyl-6-methyl-5-pyridin-4-ylsulfanyl-3H-quinazolin-4-one'>7Z9</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5x4w\|5x4w]], [[5x4x\|5x4x]], [[5x4y\|5x4y]], [[5x5a\|5x5a]], [[5x5d\|5x5d]], [[5x5q\|5x5q]], [[5x66\|5x66]], [[5x69\|5x69]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5x4w\|5x4w]], [[5x4x\|5x4x]], [[5x4y\|5x4y]], [[5x5a\|5x5a]], [[5x5d\|5x5d]], [[5x5q\|5x5q]], [[5x66\|5x66]], [[5x69\|5x69]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase Thymidylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.45 2.1.1.45] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase Thymidylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.45 2.1.1.45] </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=5x67 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x67 OCA], [http://pdbe.org/5x67 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x67 RCSB], [http://www.ebi.ac.uk/pdbsum/5x67 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x67 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=5x67 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x67 OCA], [http://pdbe.org/5x67 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x67 RCSB], [http://www.ebi.ac.uk/pdbsum/5x67 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x67 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5x67" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5x67" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Thymidylate synthase 3D structures\|Thymidylate synthase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Thymidylate synthase]]		[[Category: Thymidylate synthase]]
	[[Category: Chen, D]]		[[Category: Chen, D]]

OCA at 04:11, 30 August 2017

OCA — Wed, 30 Aug 2017 04:11:13 GMT

←Older revision		Revision as of 04:11, 30 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5x67 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Human thymidylate synthase in complex with dUMP and nolatrexed==
		+	<StructureSection load='5x67' size='340' side='right' caption='[[5x67]], [[Resolution\|resolution]] 2.13Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5x67]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X67 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X67 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7Z9:2-azanyl-6-methyl-5-pyridin-4-ylsulfanyl-3H-quinazolin-4-one'>7Z9</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5x4w\|5x4w]], [[5x4x\|5x4x]], [[5x4y\|5x4y]], [[5x5a\|5x5a]], [[5x5d\|5x5d]], [[5x5q\|5x5q]], [[5x66\|5x66]], [[5x69\|5x69]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase Thymidylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.45 2.1.1.45] </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=5x67 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x67 OCA], [http://pdbe.org/5x67 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x67 RCSB], [http://www.ebi.ac.uk/pdbsum/5x67 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x67 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TYSY_HUMAN TYSY_HUMAN]] Contributes to the de novo mitochondrial thymidylate biosynthesis pathway.<ref>PMID:21876188</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Thymidylate synthase (TS) is the sole enzyme responsible for de novo biosynthesis of thymidylate (TMP) and is essential for cell proliferation and survival. Inhibition of human TS (hTS) has been extensively investigated for cancer chemotherapy, but several aspects of its activity and regulation are still uncertain. In this study, we performed comprehensive structural and biophysical studies of hTS using crystallography and thermal shift assay and provided the first detailed structural information on the conformational changes induced by ligand binding to the hTS active site. We found that upon binding of the antifolate agents raltitrexed and nolatrexed, the two insert regions in hTS, the functions of which are unclear, undergo positional shifts toward the catalytic center. We investigated the inactive conformation of hTS and found that the two insert regions are also involved in the conformational transition between the active and inactive state of hTS. Moreover, we identified a ligand-binding site in the dimer interface, suggesting that the cavity in the dimer interface could serve as an allosteric site of hTS to regulate the conformational switching between the active and inactive states. On the basis of these findings, we propose a regulatory mechanism of hTS activity that involves allosteric regulation of interactions of hTS with its own mRNA depending on cellular demands for TMP.

-	~~Authors: Chen~~, D., Jansson, A., ~~Larsson~~, A., Nordlund, P.	+	Structural analyses of human thymidylate synthase reveal a site that may control conformational switching between active and inactive states.,Chen D, Jansson A, Sim D, Larsson A, Nordlund P J Biol Chem. 2017 Aug 11;292(32):13449-13458. doi: 10.1074/jbc.M117.787267. Epub , 2017 Jun 20. PMID:28634233<ref>PMID:28634233</ref>

-	~~Description: Human thymidylate synthase in complex with dUMP and nolatrexed~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Nordlund, P]]~~	+	<div class="pdbe-citations 5x67" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Larsson, A~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Thymidylate synthase]]
	[[Category: Chen, D]]		[[Category: Chen, D]]
	[[Category: Jansson, A]]		[[Category: Jansson, A]]
		+	[[Category: Larsson, A]]
		+	[[Category: Nordlund, P]]
		+	[[Category: Methyltransferase]]
		+	[[Category: Transferase]]

OCA at 20:13, 15 March 2017

OCA — Wed, 15 Mar 2017 20:13:32 GMT

←Older revision		Revision as of 20:13, 15 March 2017
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	[[Category: Nordlund, P]]		[[Category: Nordlund, P]]
	[[Category: Larsson, A]]		[[Category: Larsson, A]]
-	[[Category: Jansson, A]]
	[[Category: Chen, D]]		[[Category: Chen, D]]
		+	[[Category: Jansson, A]]

OCA: Protected "5x67" [edit=sysop:move=sysop]

OCA — Thu, 09 Mar 2017 15:48:28 GMT

Protected "5x67" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:48, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5x67 is ON HOLD until Paper Publication Authors: Chen, D., Jansson, A., Larsson, A., Nordlund, P. Description: Human thymidylate synthase in comple...

OCA — Thu, 09 Mar 2017 15:48:27 GMT

New page: '''Unreleased structure''' The entry 5x67 is ON HOLD until Paper Publication Authors: Chen, D., Jansson, A., Larsson, A., Nordlund, P. Description: Human thymidylate synthase in comple...

New page

'''Unreleased structure'''

The entry 5x67 is ON HOLD until Paper Publication

Authors: Chen, D., Jansson, A., Larsson, A., Nordlund, P.

Description: Human thymidylate synthase in complex with dUMP and nolatrexed
[[Category: Unreleased Structures]]
[[Category: Nordlund, P]]
[[Category: Larsson, A]]
[[Category: Jansson, A]]
[[Category: Chen, D]]