1hy0: Difference between revisions

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-[[Image:1hy0.jpg|left|200px]]<br /><applet load="1hy0" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="1hy0, resolution 2.20&Aring;" />
-'''CRYSTAL STRUCTURE OF WILD TYPE DUCK DELTA 1 CRYSTALLIN (EYE LENS PROTEIN)'''<br />
-==Overview==
+==CRYSTAL STRUCTURE OF WILD TYPE DUCK DELTA 1 CRYSTALLIN (EYE LENS PROTEIN)==
-Duck delta1 and delta2 crystallin are 94% identical in amino acid sequence, and while delta2 crystallin is the duck orthologue of argininosuccinate lyase (ASL) and catalyzes the reversible breakdown of argininosuccinate to arginine and fumarate, the delta1 isoform is enzymatically inactive. The crystal structures of wild type duck delta1 and delta2 crystallin have been solved at 2.2 and 2.3 A resolution, respectively, and the refinement of the turkey delta1 crystallin has been completed. These structures have been compared with two mutant duck delta2 crystallin structures. Conformational changes were observed in two regions of the N-terminal domain with intraspecies differences between the active and inactive isoforms localized to residues 23-32 and both intra- and interspecies differences localized to the loop of residues 74-89. As the residues implicated in the catalytic mechanism of delta2/ASL are all conserved in delta1, the amino acid substitutions in these two regions are hypothesized to be critical for substrate binding. A sulfate anion was found in the active site of duck delta1 crystallin. This anion, which appears to mimic the fumarate moiety of the argininosuccinate substrate, induces a rigid body movement in domain 3 and a conformational change in the loop of residues 280-290, which together would sequester the substrate from the solvent. The duck delta1 crystallin structure suggests that Ser 281, a residue strictly conserved in all members of the superfamily, could be the catalytic acid in the delta2 crystallin/ASL enzymatic mechanism.
+<StructureSection load='1hy0' size='340' side='right'caption='[[1hy0]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1hy0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Anas_platyrhynchos Anas platyrhynchos]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HY0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1HY0 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=1hy0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hy0 OCA], [https://pdbe.org/1hy0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1hy0 RCSB], [https://www.ebi.ac.uk/pdbsum/1hy0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1hy0 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ARLY1_ANAPL ARLY1_ANAPL] Delta crystallin, the principal crystallin in embryonic lens, is found only in birds and reptiles. Despite possessing the necessary catalytic residues, this protein does not function as an enzymatically active argininosuccinate lyase.<ref>PMID:7944404</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hy/1hy0_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </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/main_output.php?pdb_ID=1hy0 ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-HY0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Anas_platyrhynchos Anas platyrhynchos] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Argininosuccinate_lyase Argininosuccinate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.2.1 4.3.2.1] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1HY0 OCA].
+*[[Crystallin 3D structures|Crystallin 3D structures]]
+== References ==
-==Reference==
+<references/>
-Structural studies of duck delta 1 and delta 2 crystallin suggest conformational changes occur during catalysis., Sampaleanu LM, Vallee F, Slingsby C, Howell PL, Biochemistry. 2001 Mar 6;40(9):2732-42. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11258884 11258884]
+__TOC__
+</StructureSection>
 [[Category: Anas platyrhynchos]]
-[[Category: Argininosuccinate lyase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Howell PL]]
-[[Category: Howell, P L.]]
+[[Category: Sampaleanu LM]]
-[[Category: Sampaleanu, L M.]]
+[[Category: Slingsby C]]
-[[Category: Slingsby, C.]]
+[[Category: Vallee F]]
-[[Category: Vallee, F.]]
-[[Category: SO4]]
-[[Category: argininosuccinate lyase]]
-[[Category: delta 1 crystallin]]
-[[Category: eye lens protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:05:58 2008''