6u9o - Revision history

OCA at 09:29, 20 March 2024

OCA — Wed, 20 Mar 2024 09:29:07 GMT

←Older revision		Revision as of 09:29, 20 March 2024
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	<StructureSection load='6u9o' size='340' side='right'caption='[[6u9o]], [[Resolution\|resolution]] 3.36Å' scene=''>		<StructureSection load='6u9o' size='340' side='right'caption='[[6u9o]], [[Resolution\|resolution]] 3.36Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6u9o]] is a 16 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U9O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6U9O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6u9o]] is a 16 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=6U9O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6U9O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene~~></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.36Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6u8e\|6u8e]], [[6u8n\|6u8n]], [[6u8r\|6u8r]], [[6u8s\|6u8s]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_dehydrogenase IMP dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.205 1.1.1.205] </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=6u9o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u9o OCA], [https://pdbe.org/6u9o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6u9o RCSB], [https://www.ebi.ac.uk/pdbsum/6u9o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6u9o ProSAT]</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=6u9o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u9o OCA], [~~http~~://pdbe.org/6u9o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6u9o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6u9o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6u9o ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/IMDH2_HUMAN IMDH2_HUMAN]] Catalyzes the conversion of inosine 5'-phosphate (IMP) to xanthosine 5'-phosphate (XMP), the first committed and rate-limiting step in the de novo synthesis of guanine nucleotides, and therefore plays an important role in the regulation of cell growth. Could also have a single-stranded nucleic acid-binding activity and could play a role in RNA and/or DNA metabolism. It may also have a role in the development of malignancy and the growth progression of some tumors.[HAMAP-Rule:MF_03156]	+	[https://www.uniprot.org/uniprot/IMDH2_HUMAN IMDH2_HUMAN] Catalyzes the conversion of inosine 5'-phosphate (IMP) to xanthosine 5'-phosphate (XMP), the first committed and rate-limiting step in the de novo synthesis of guanine nucleotides, and therefore plays an important role in the regulation of cell growth. Could also have a single-stranded nucleic acid-binding activity and could play a role in RNA and/or DNA metabolism. It may also have a role in the development of malignancy and the growth progression of some tumors.[HAMAP-Rule:MF_03156]
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Inosine monophosphate dehydrogenase (IMPDH) mediates the first committed step in guanine nucleotide biosynthesis and plays important roles in cellular proliferation and the immune response. IMPDH reversibly polymerizes in cells and tissues in response to changes in metabolic demand. Self-assembly of metabolic enzymes is increasingly recognized as a general mechanism for regulating activity, typically by stabilizing specific conformations of an enzyme, but the regulatory role of IMPDH filaments has remained unclear. Here, we report a series of human IMPDH2 cryo-EM structures in both active and inactive conformations. The structures define the mechanism of filament assembly, and reveal how filament-dependent allosteric regulation of IMPDH2 makes the enzyme less sensitive to feedback inhibition, explaining why assembly occurs under physiological conditions that require expansion of guanine nucleotide pools. Tuning sensitivity to an allosteric inhibitor distinguishes IMPDH from other metabolic filaments, and highlights the diversity of regulatory outcomes that can emerge from self-assembly.	+

-	Cryo-EM structures demonstrate human IMPDH2 filament assembly tunes allosteric regulation.,Johnson MC, Kollman JM Elife. 2020 Jan 30;9. pii: 53243. doi: 10.7554/eLife.53243. PMID:31999252<ref>PMID:31999252</ref>	+	==See Also==
-		+	*[[Inosine monophosphate dehydrogenase 3D structures\|Inosine monophosphate dehydrogenase 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 6u9o" style~~=~~"background-color:#fffaf0;"></div>~~	+
-	~~== References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~IMP dehydrogenase~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Johnson~~, M C~~]]	+	[[Category: Johnson MC]]
-	[[Category: Kollman~~, J M]]~~	+	[[Category: Kollman JM]]
-	~~[[Category: Adenine]]~~	+
-	~~[[Category: Allostery]]~~	+
-	~~[[Category: Biosynthetic protein]]~~	+
-	~~[[Category: Filament]]~~	+
-	~~[[Category: Guanine]]~~	+
-	~~[[Category: Metabolism~~]]	+

OCA at 10:22, 27 March 2020

OCA — Fri, 27 Mar 2020 10:22:13 GMT

←Older revision		Revision as of 10:22, 27 March 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6u9o is ~~ON HOLD until Paper~~ Publication	+	==Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Fully compressed filament segment reconstruction.==
		+	<StructureSection load='6u9o' size='340' side='right'caption='[[6u9o]], [[Resolution\|resolution]] 3.36Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6u9o]] is a 16 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U9O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6U9O FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=IMP:INOSINIC+ACID'>IMP</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6u8e\|6u8e]], [[6u8n\|6u8n]], [[6u8r\|6u8r]], [[6u8s\|6u8s]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/IMP_dehydrogenase IMP dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.205 1.1.1.205] </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=6u9o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u9o OCA], [http://pdbe.org/6u9o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u9o RCSB], [http://www.ebi.ac.uk/pdbsum/6u9o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u9o ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/IMDH2_HUMAN IMDH2_HUMAN]] Catalyzes the conversion of inosine 5'-phosphate (IMP) to xanthosine 5'-phosphate (XMP), the first committed and rate-limiting step in the de novo synthesis of guanine nucleotides, and therefore plays an important role in the regulation of cell growth. Could also have a single-stranded nucleic acid-binding activity and could play a role in RNA and/or DNA metabolism. It may also have a role in the development of malignancy and the growth progression of some tumors.[HAMAP-Rule:MF_03156]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Inosine monophosphate dehydrogenase (IMPDH) mediates the first committed step in guanine nucleotide biosynthesis and plays important roles in cellular proliferation and the immune response. IMPDH reversibly polymerizes in cells and tissues in response to changes in metabolic demand. Self-assembly of metabolic enzymes is increasingly recognized as a general mechanism for regulating activity, typically by stabilizing specific conformations of an enzyme, but the regulatory role of IMPDH filaments has remained unclear. Here, we report a series of human IMPDH2 cryo-EM structures in both active and inactive conformations. The structures define the mechanism of filament assembly, and reveal how filament-dependent allosteric regulation of IMPDH2 makes the enzyme less sensitive to feedback inhibition, explaining why assembly occurs under physiological conditions that require expansion of guanine nucleotide pools. Tuning sensitivity to an allosteric inhibitor distinguishes IMPDH from other metabolic filaments, and highlights the diversity of regulatory outcomes that can emerge from self-assembly.

-	~~Authors~~:	+	Cryo-EM structures demonstrate human IMPDH2 filament assembly tunes allosteric regulation.,Johnson MC, Kollman JM Elife. 2020 Jan 30;9. pii: 53243. doi: 10.7554/eLife.53243. PMID:31999252<ref>PMID:31999252</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6u9o" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: IMP dehydrogenase]]
		+	[[Category: Large Structures]]
		+	[[Category: Johnson, M C]]
		+	[[Category: Kollman, J M]]
		+	[[Category: Adenine]]
		+	[[Category: Allostery]]
		+	[[Category: Biosynthetic protein]]
		+	[[Category: Filament]]
		+	[[Category: Guanine]]
		+	[[Category: Metabolism]]

OCA at 07:35, 30 October 2019

OCA — Wed, 30 Oct 2019 07:35:19 GMT

←Older revision		Revision as of 07:35, 30 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6u9o is ON HOLD	+	The entry 6u9o is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6u9o" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:27:10 GMT

Protected "6u9o" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:27, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6u9o is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 08:27:08 GMT

New page: '''Unreleased structure''' The entry 6u9o is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6u9o is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]