5wmu - Revision history

OCA at 14:17, 4 October 2023

OCA — Wed, 04 Oct 2023 14:17:39 GMT

←Older revision		Revision as of 14:17, 4 October 2023
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	<StructureSection load='5wmu' size='340' side='right'caption='[[5wmu]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='5wmu' size='340' side='right'caption='[[5wmu]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wmu]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WMU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WMU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wmu]] 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=5WMU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WMU FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</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]] 2.4Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wmv\|5wmv]]~~, [[~~5wmw~~\|~~5wmw]], [[5wmx\|5wmx]], [[5wn8\|5wn8~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~IDO1, IDO, INDO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=9606 HUMAN])</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=5wmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wmu OCA], [https://pdbe.org/5wmu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wmu RCSB], [https://www.ebi.ac.uk/pdbsum/5wmu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wmu ProSAT]</span></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Indoleamine_2,3-dioxygenase Indoleamine 2,3-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.52 1.13.11.52]~~ </~~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=5wmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wmu OCA], [~~http~~://pdbe.org/5wmu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wmu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wmu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wmu ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/I23O1_HUMAN I23O1_HUMAN]] Catalyzes the cleavage of the pyrrol ring of tryptophan and incorporates both atoms of a molecule of oxygen.<ref>PMID:17671174</ref>	+	[https://www.uniprot.org/uniprot/I23O1_HUMAN I23O1_HUMAN] Catalyzes the cleavage of the pyrrol ring of tryptophan and incorporates both atoms of a molecule of oxygen.<ref>PMID:17671174</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: ~~Human]]~~	+	[[Category: Homo sapiens]]
-	~~[[Category: Indoleamine 2,3-dioxygenase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Batabyal, D]]	+	[[Category: Batabyal D]]
-	[[Category: Bonanno~~, J B~~]]	+	[[Category: Bonanno JB]]
-	[[Category: Karkashon, S]]	+	[[Category: Karkashon S]]
-	[[Category: Lewis-Ballester, A]]	+	[[Category: Lewis-Ballester A]]
-	[[Category: Pham~~, K N~~]]	+	[[Category: Pham KN]]
-	[[Category: Poulos~~, T L~~]]	+	[[Category: Poulos TL]]
-	[[Category: Yeh~~, S R]]~~	+	[[Category: Yeh SR]]
-	~~[[Category: Dioxygenase tryptophan heme inhibitor]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 08:12, 27 November 2019

OCA — Wed, 27 Nov 2019 08:12:43 GMT

←Older revision		Revision as of 08:12, 27 November 2019
Line 1:		Line 1:

	==Structural Insights into Substrate and Inhibitor Binding Sites in Human Indoleamine 2,3-Dioxygenase I==		==Structural Insights into Substrate and Inhibitor Binding Sites in Human Indoleamine 2,3-Dioxygenase I==
-	<StructureSection load='5wmu' size='340' side='right' caption='[[5wmu]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='5wmu' size='340' side='right'caption='[[5wmu]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wmu]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WMU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WMU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wmu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WMU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WMU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wmv\|5wmv]], [[5wmw\|5wmw]], [[5wmx\|5wmx]], [[5wn8\|5wn8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wmv\|5wmv]], [[5wmw\|5wmw]], [[5wmx\|5wmx]], [[5wn8\|5wn8]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">IDO1, IDO, INDO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Indoleamine_2,3-dioxygenase Indoleamine 2,3-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.52 1.13.11.52] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Indoleamine_2,3-dioxygenase Indoleamine 2,3-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.52 1.13.11.52] </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=5wmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wmu OCA], [http://pdbe.org/5wmu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wmu RCSB], [http://www.ebi.ac.uk/pdbsum/5wmu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wmu 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=5wmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wmu OCA], [http://pdbe.org/5wmu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wmu RCSB], [http://www.ebi.ac.uk/pdbsum/5wmu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wmu ProSAT]</span></td></tr>
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	</div>		</div>
	<div class="pdbe-citations 5wmu" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5wmu" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Indoleamine 2,3-dioxygenase]]		[[Category: Indoleamine 2,3-dioxygenase]]
		+	[[Category: Large Structures]]
	[[Category: Batabyal, D]]		[[Category: Batabyal, D]]
	[[Category: Bonanno, J B]]		[[Category: Bonanno, J B]]

OCA at 07:17, 6 December 2017

OCA — Wed, 06 Dec 2017 07:17:49 GMT

←Older revision		Revision as of 07:17, 6 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5wmu is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Structural Insights into Substrate and Inhibitor Binding Sites in Human Indoleamine 2,3-Dioxygenase I==
		+	<StructureSection load='5wmu' size='340' side='right' caption='[[5wmu]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5wmu]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WMU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WMU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wmv\|5wmv]], [[5wmw\|5wmw]], [[5wmx\|5wmx]], [[5wn8\|5wn8]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Indoleamine_2,3-dioxygenase Indoleamine 2,3-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.52 1.13.11.52] </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=5wmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wmu OCA], [http://pdbe.org/5wmu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wmu RCSB], [http://www.ebi.ac.uk/pdbsum/5wmu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wmu ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/I23O1_HUMAN I23O1_HUMAN]] Catalyzes the cleavage of the pyrrol ring of tryptophan and incorporates both atoms of a molecule of oxygen.<ref>PMID:17671174</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Human indoleamine 2,3-dioxygenase 1 (hIDO1) is an attractive cancer immunotherapeutic target owing to its role in promoting tumoral immune escape. However, drug development has been hindered by limited structural information. Here, we report the crystal structures of hIDO1 in complex with its substrate, Trp, an inhibitor, epacadostat, and/or an effector, indole ethanol (IDE). The data reveal structural features of the active site (Sa) critical for substrate activation; in addition, they disclose a new inhibitor-binding mode and a distinct small molecule binding site (Si). Structure-guided mutation of a critical residue, F270, to glycine perturbs the Si site, allowing structural determination of an inhibitory complex, where both the Sa and Si sites are occupied by Trp. The Si site offers a novel target site for allosteric inhibitors and a molecular explanation for the previously baffling substrate-inhibition behavior of the enzyme. Taken together, the data open exciting new avenues for structure-based drug design.

-	~~Authors~~:	+	Structural insights into substrate and inhibitor binding sites in human indoleamine 2,3-dioxygenase 1.,Lewis-Ballester A, Pham KN, Batabyal D, Karkashon S, Bonanno JB, Poulos TL, Yeh SR Nat Commun. 2017 Nov 22;8(1):1693. doi: 10.1038/s41467-017-01725-8. PMID:29167421<ref>PMID:29167421</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5wmu" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Indoleamine 2,3-dioxygenase]]
		+	[[Category: Batabyal, D]]
		+	[[Category: Bonanno, J B]]
		+	[[Category: Karkashon, S]]
		+	[[Category: Lewis-Ballester, A]]
		+	[[Category: Pham, K N]]
		+	[[Category: Poulos, T L]]
		+	[[Category: Yeh, S R]]
		+	[[Category: Dioxygenase tryptophan heme inhibitor]]
		+	[[Category: Oxidoreductase]]

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

OCA — Wed, 27 Sep 2017 14:59:34 GMT

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

←Older revision

Revision as of 14:59, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5wmu is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 14:59:33 GMT

New page: '''Unreleased structure''' The entry 5wmu is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5wmu is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]