5ko7 - Revision history

OCA at 10:49, 27 September 2023

OCA — Wed, 27 Sep 2023 10:49:42 GMT

←Older revision		Revision as of 10:49, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5ko7' size='340' side='right'caption='[[5ko7]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='5ko7' size='340' side='right'caption='[[5ko7]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ko7]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Halh1 Halh1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KO7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5KO7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ko7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Haliscomenobacter_hydrossis_DSM_1100 Haliscomenobacter hydrossis DSM 1100]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KO7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KO7 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</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]] 2.248Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5ko8\|5ko8]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">Halhy_2296 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=760192 HALH1])~~</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=5ko7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ko7 OCA], [https://pdbe.org/5ko7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ko7 RCSB], [https://www.ebi.ac.uk/pdbsum/5ko7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ko7 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=5ko7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ko7 OCA], [~~http~~://pdbe.org/5ko7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ko7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ko7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ko7 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/IYD_HALH1 IYD_HALH1] Catalyzes the dehalogenation of halotyrosines such as 3-iodo-L-tyrosine and 3,5-diiodo-L-tyrosine (PubMed:24153409, PubMed:28157283). Likely to also catalyze the dehalogenation of other halotyrosines such as 3-bromo-L-tyrosine, 3-chloro-L-tyrosine and 3-iodo-L-tyrosine (By similarity). Activity towards 3-iodo-L-tyrosine is much stronger than activity towards 3,5-diiodo-L-tyrosine and 2-iodophenol (PubMed:28157283, PubMed:24153409).[UniProtKB:B9K712]<ref>PMID:24153409</ref> <ref>PMID:28157283</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 21:

	==See Also==		==See Also==
-	*[[Nitroreductase\|Nitroreductase]]	+	*[[Nitroreductase 3D structures\|Nitroreductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Halh1~~]]	+	[[Category: Haliscomenobacter hydrossis DSM 1100]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ingavat, N]]	+	[[Category: Ingavat N]]
-	[[Category: Kavran~~, J M~~]]	+	[[Category: Kavran JM]]
-	[[Category: Rokita, S]]	+	[[Category: Rokita S]]
-	[[Category: Sun, Z]]	+	[[Category: Sun Z]]
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 06:29, 5 August 2020

OCA — Wed, 05 Aug 2020 06:29:34 GMT

←Older revision		Revision as of 06:29, 5 August 2020
Line 1:		Line 1:

	==Crystal structure of haliscomenobacter hydrossis iodotyrosine deiodinase (IYD) bound to FMN==		==Crystal structure of haliscomenobacter hydrossis iodotyrosine deiodinase (IYD) bound to FMN==
-	<StructureSection load='5ko7' size='340' side='right' caption='[[5ko7]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='5ko7' size='340' side='right'caption='[[5ko7]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ko7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KO7 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KO7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ko7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Halh1 Halh1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KO7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KO7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ko8\|5ko8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ko8\|5ko8]]</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=5ko7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ko7 OCA], [http://pdbe.org/5ko7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ko7 RCSB], [http://www.ebi.ac.uk/pdbsum/5ko7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ko7 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Halhy_2296 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=760192 HALH1])</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=5ko7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ko7 OCA], [http://pdbe.org/5ko7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ko7 RCSB], [http://www.ebi.ac.uk/pdbsum/5ko7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ko7 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5ko7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5ko7" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Nitroreductase\|Nitroreductase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Halh1]]
		+	[[Category: Large Structures]]
	[[Category: Ingavat, N]]		[[Category: Ingavat, N]]
	[[Category: Kavran, J M]]		[[Category: Kavran, J M]]

OCA at 06:56, 9 March 2017

OCA — Thu, 09 Mar 2017 06:56:46 GMT

←Older revision		Revision as of 06:56, 9 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ko7 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of haliscomenobacter hydrossis iodotyrosine deiodinase (IYD) bound to FMN==
		+	<StructureSection load='5ko7' size='340' side='right' caption='[[5ko7]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ko7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KO7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KO7 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ko8\|5ko8]]</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=5ko7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ko7 OCA], [http://pdbe.org/5ko7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ko7 RCSB], [http://www.ebi.ac.uk/pdbsum/5ko7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ko7 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The minimal requirements for substrate recognition and turnover by iodotyrosine deiodinase were examined to learn the basis for its catalytic specificity. This enzyme is crucial for iodide homeostasis and the generation of thyroid hormone in chordates. 2-Iodophenol binds only very weakly to the human enzyme and is dehalogenated with a kcat/Km that is more than 4 orders of magnitude lower than that for iodotyrosine. This discrimination likely protects against a futile cycle of iodinating and deiodinating precursors of thyroid hormone biosynthesis. Surprisingly, a very similar catalytic selectivity was expressed by a bacterial homologue from Haliscomenobacter hydrossis. In this example, discrimination was not based on affinity since 4-cyano-2-iodophenol bound to the bacterial deiodinase with a Kd lower than that of iodotyrosine and yet was not detectably deiodinated. Other phenols including 2-iodophenol were deiodinated but only very inefficiently. Crystal structures of the bacterial enzyme with and without bound iodotyrosine are nearly superimposable and quite similar to the corresponding structures of the human enzyme. Likewise, the bacterial enzyme is activated for single electron transfer after binding to the substrate analogue fluorotyrosine as previously observed with the human enzyme. A cocrystal structure of bacterial deiodinase and 2-iodophenol indicates that this ligand stacks on the active site flavin mononucleotide (FMN) in a orientation analogous to that of bound iodotyrosine. However, 2-iodophenol association is not sufficient to activate the FMN chemistry required for catalysis, and thus the bacterial enzyme appears to share a similar specificity for halotyrosines even though their physiological roles are likely very different from those in humans.

-	~~Authors~~:	+	Active Site Binding Is Not Sufficient for Reductive Deiodination by Iodotyrosine Deiodinase.,Ingavat N, Kavran JM, Sun Z, Rokita SE Biochemistry. 2017 Feb 28;56(8):1130-1139. doi: 10.1021/acs.biochem.6b01308. Epub, 2017 Feb 16. PMID:28157283<ref>PMID:28157283</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5ko7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ingavat, N]]
		+	[[Category: Kavran, J M]]
		+	[[Category: Rokita, S]]
		+	[[Category: Sun, Z]]
		+	[[Category: Oxidoreductase]]

OCA at 12:38, 26 July 2016

OCA — Tue, 26 Jul 2016 12:38:23 GMT

←Older revision		Revision as of 12:38, 26 July 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ko7 is ON HOLD	+	The entry 5ko7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5ko7" [edit=sysop:move=sysop]

OCA — Wed, 13 Jul 2016 00:38:43 GMT

Protected "5ko7" [edit=sysop:move=sysop]

←Older revision

Revision as of 00:38, 13 July 2016

OCA: New page: '''Unreleased structure''' The entry 5ko7 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 13 Jul 2016 00:38:42 GMT

New page: '''Unreleased structure''' The entry 5ko7 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5ko7 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]