3iwv

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (16:03, 1 November 2023) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal structure of Y116T mutant of 5-HYDROXYISOURATE HYDROLASE (TRP)==
==Crystal structure of Y116T mutant of 5-HYDROXYISOURATE HYDROLASE (TRP)==
-
<StructureSection load='3iwv' size='340' side='right' caption='[[3iwv]], [[Resolution|resolution]] 1.68&Aring;' scene=''>
+
<StructureSection load='3iwv' size='340' side='right'caption='[[3iwv]], [[Resolution|resolution]] 1.68&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3iwv]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IWV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IWV FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3iwv]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IWV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IWV FirstGlance]. <br>
-
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2h1x|2h1x]], [[2h6u|2h6u]], [[3iwu|3iwu]]</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]] 1.68&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">urah ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Danio rerio])</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=3iwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iwv OCA], [https://pdbe.org/3iwv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iwv RCSB], [https://www.ebi.ac.uk/pdbsum/3iwv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iwv 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/Hydroxyisourate_hydrolase Hydroxyisourate hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.17 3.5.2.17] </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=3iwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iwv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iwv RCSB], [http://www.ebi.ac.uk/pdbsum/3iwv PDBsum]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/HIUH_DANRE HIUH_DANRE]] Catalyzes the hydrolysis of 5-hydroxyisourate (HIU) to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU).
+
[https://www.uniprot.org/uniprot/HIUH_DANRE HIUH_DANRE] Catalyzes the hydrolysis of 5-hydroxyisourate (HIU) to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU).
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
-
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iw/3iwv_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iw/3iwv_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
</jmolCheckbox>
</jmolCheckbox>
-
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
+
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3iwv ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
-
During early vertebrate evolution, a duplication event in the gene encoding 5-hydroxyisourate hydrolase (HIUase), a widely distributed enzyme of purine metabolism, gave rise to transthyretin (TTR), a thyroid hormone transporter. We report here on the crystal structure of zebra fish HIUase in two different crystal forms. Despite the phylogenetic distance, this structure compares well with those of newly characterized bacterial HIUases, especially with regard to catalytic regions, which are highly preserved. Comparison with TTR structure reveals a highly conserved scaffold, harbouring distinct functional sites located in the same regions of the two vertebrate proteins. Residues that are differentially conserved in HIUases compared to TTR map in putative catalytic regions occupying significant portions of the two halves of a central channel that transverses the whole TTR protein. The evolution of TTR has been accompanied by remarkable changes of the HIUase active sites that gave rise to a channel open at both ends, thus allowing free access to hormone molecules.
+
5-Hydroxyisourate hydrolase (HIUase) and transthyretin (TTR) are closely related phylogenetically and structurally, while performing quite different functions. The former catalyzes the hydrolysis of 5-hydroxyisourate within the urate degradation pathway, and the latter is a carrier protein involved in the extracellular transport of thyroid hormones and in the cotransport of retinol. The evolution of HIUase into TTR represents a remarkable example of adaptation of a new function by active-site modification of an enzyme. On the basis of phylogenetic reconstructions and structural comparison of HIUase and TTR, two mutations (Y116T and I16A) were likely to be crucial events in order to induce, after a gene duplication event, the conversion of the enzyme into a binding protein. By rational reshaping of the active sites of HIUase and functional analyses of its mutant forms, we have provided insights into how its neofunctionalization could be achieved. We show here that the two mutations at the active sites of HIUase open up the two ends of the channel that transverses the entire tetrameric protein, generating two cavities accessible to the thyroxine molecule and abrogating, at the same time, the enzymatic activity. Our data indicate that a small number of critical mutations affecting the active site of an enzyme may be sufficient to generate a drastically different function, while a large number of additional mutations may be required for the fine-tuning of the structural and functional features of new proteins.
-
Structure of zebra fish HIUase: insights into evolution of an enzyme to a hormone transporter.,Zanotti G, Cendron L, Ramazzina I, Folli C, Percudani R, Berni R J Mol Biol. 2006 Oct 13;363(1):1-9. Epub 2006 Aug 2. PMID:16952372<ref>PMID:16952372</ref>
+
Probing the evolution of hydroxyisourate hydrolase into transthyretin through active-site redesign.,Cendron L, Ramazzina I, Percudani R, Rasore C, Zanotti G, Berni R J Mol Biol. 2011 Jun 17;409(4):504-12. Epub 2011 Apr 16. PMID:21515285<ref>PMID:21515285</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
</div>
 +
<div class="pdbe-citations 3iwv" style="background-color:#fffaf0;"></div>
== References ==
== References ==
<references/>
<references/>
Line 33: Line 33:
</StructureSection>
</StructureSection>
[[Category: Danio rerio]]
[[Category: Danio rerio]]
-
[[Category: Hydroxyisourate hydrolase]]
+
[[Category: Large Structures]]
-
[[Category: Berni, R]]
+
[[Category: Berni R]]
-
[[Category: Cendron, L]]
+
[[Category: Cendron L]]
-
[[Category: Percudani, R]]
+
[[Category: Percudani R]]
-
[[Category: Ramazzina, I]]
+
[[Category: Ramazzina I]]
-
[[Category: Zanotti, G]]
+
[[Category: Zanotti G]]
-
[[Category: Hydrolase]]
+
-
[[Category: Molecular evolution]]
+
-
[[Category: Peroxisome]]
+
-
[[Category: Purine metabolism]]
+
-
[[Category: Thyroid hormone]]
+
-
[[Category: Transthyretin]]
+
-
[[Category: Uric acid degradation]]
+

Current revision

Crystal structure of Y116T mutant of 5-HYDROXYISOURATE HYDROLASE (TRP)

PDB ID 3iwv

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools