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New page: left|200px<br /><applet load="1dr0" size="450" color="white" frame="true" align="right" spinBox="true" caption="1dr0, resolution 2.20Å" /> '''STRUCTURE OF MODIFIE...
 
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[[Image:1dr0.jpg|left|200px]]<br /><applet load="1dr0" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1dr0, resolution 2.20&Aring;" />
'''STRUCTURE OF MODIFIED 3-ISOPROPYLMALATE DEHYDROGENASE AT THE C-TERMINUS, HD708'''<br />


==Overview==
==STRUCTURE OF MODIFIED 3-ISOPROPYLMALATE DEHYDROGENASE AT THE C-TERMINUS, HD708==
Thermal stability of the Thermus thermophilus isopropylmalate, dehydrogenase enzyme was substantially lost upon the deletion of three, residues from the C-terminus. However, the stability was partly recovered, by the addition of two, four and seven amino acid residues (called HD177, HD708 and HD711, respectively) to the C-terminal region of the truncated, enzyme. Three structures of these mutant enzymes were determined by an, X-ray diffraction method. All protein crystals belong to space group P2(1), and their structures were solved by a standard molecular replacement, method where the original dimer structure of the A172L mutant was used as, a search model. Thermal stability of these mutant enzymes is discussed, based on the 3D structure with special attention to the width of the, active-site groove and the minor groove, distortion of beta-sheet pillar, structure and size of cavity in the domain-domain interface around the, C-terminus. Our previous studies revealed that the thermal stability of, isopropylmalate dehydrogenase increases when the active-site cleft is, closed (the closed form). In the present study it is shown that the, active-site cleft can be regulated by open-close movement of the minor, groove located at the opposite side to the active-site groove on the same, subunit, through a paperclip-like motion.
<StructureSection load='1dr0' size='340' side='right'caption='[[1dr0]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1dr0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DR0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DR0 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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1dr0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dr0 OCA], [https://pdbe.org/1dr0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dr0 RCSB], [https://www.ebi.ac.uk/pdbsum/1dr0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dr0 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/LEU3_THET8 LEU3_THET8] Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.[HAMAP-Rule:MF_01033]
== 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/dr/1dr0_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=1dr0 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Thermal stability of the Thermus thermophilus isopropylmalate dehydrogenase enzyme was substantially lost upon the deletion of three residues from the C-terminus. However, the stability was partly recovered by the addition of two, four and seven amino acid residues (called HD177, HD708 and HD711, respectively) to the C-terminal region of the truncated enzyme. Three structures of these mutant enzymes were determined by an X-ray diffraction method. All protein crystals belong to space group P2(1) and their structures were solved by a standard molecular replacement method where the original dimer structure of the A172L mutant was used as a search model. Thermal stability of these mutant enzymes is discussed based on the 3D structure with special attention to the width of the active-site groove and the minor groove, distortion of beta-sheet pillar structure and size of cavity in the domain-domain interface around the C-terminus. Our previous studies revealed that the thermal stability of isopropylmalate dehydrogenase increases when the active-site cleft is closed (the closed form). In the present study it is shown that the active-site cleft can be regulated by open-close movement of the minor groove located at the opposite side to the active-site groove on the same subunit, through a paperclip-like motion.


==About this Structure==
Crystal structures of 3-isopropylmalate dehydrogenases with mutations at the C-terminus: crystallographic analyses of structure-stability relationships.,Nurachman Z, Akanuma S, Sato T, Oshima T, Tanaka N Protein Eng. 2000 Apr;13(4):253-8. PMID:10810156<ref>PMID:10810156</ref>
1DR0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Active as [http://en.wikipedia.org/wiki/3-isopropylmalate_dehydrogenase 3-isopropylmalate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.85 1.1.1.85] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DR0 OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Crystal structures of 3-isopropylmalate dehydrogenases with mutations at the C-terminus: crystallographic analyses of structure-stability relationships., Nurachman Z, Akanuma S, Sato T, Oshima T, Tanaka N, Protein Eng. 2000 Apr;13(4):253-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10810156 10810156]
</div>
[[Category: 3-isopropylmalate dehydrogenase]]
<div class="pdbe-citations 1dr0" style="background-color:#fffaf0;"></div>
[[Category: Single protein]]
[[Category: Thermus thermophilus]]
[[Category: Akanuma, S.]]
[[Category: Nurachman, Z.]]
[[Category: Oshima, T.]]
[[Category: Sato, T.]]
[[Category: Tanaka, N.]]
[[Category: dehydrogenase]]
[[Category: minor groove]]
[[Category: paperclip motion]]


''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 13:30:45 2007''
==See Also==
*[[Isopropylmalate dehydrogenase|Isopropylmalate dehydrogenase]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Thermus thermophilus HB8]]
[[Category: Akanuma S]]
[[Category: Nurachman Z]]
[[Category: Oshima T]]
[[Category: Sato T]]
[[Category: Tanaka N]]
Retrieved from "https://proteopedia.org/1dr0"