1zk3

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(New page: 200px<br /><applet load="1zk3" size="450" color="white" frame="true" align="right" spinBox="true" caption="1zk3, resolution 2.2&Aring;" /> '''Triclinic crystal str...)
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[[Image:1zk3.gif|left|200px]]<br /><applet load="1zk3" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1zk3, resolution 2.2&Aring;" />
 
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'''Triclinic crystal structure of the apo-form of R-specific alcohol dehydrogenase (mutant G37D) from Lactobacillus brevis'''<br />
 
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==Overview==
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==Triclinic crystal structure of the apo-form of R-specific alcohol dehydrogenase (mutant G37D) from Lactobacillus brevis==
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The R-specific alcohol dehydrogenase (RADH) from Lactobacillus brevis is, an NADP-dependent, homotetrameric member of the extended enzyme family of, short-chain dehydrogenases/reductases (SDR) with a high biotechnological, application potential. Its preferred in vitro substrates are prochiral, ketones like acetophenone with almost invariably a small methyl group as, one substituent and a bulky (often aromatic) moiety as the other. On the, basis of an atomic-resolution structure of wild-type RADH in complex with, NADP and acetophenone, we designed the mutant RADH-G37D, which should, possess an improved cosubstrate specificity profile for biotechnological, purposes, namely, a preference for NAD rather than NADP. Comparative, kinetic measurements with wild-type and mutant RADH showed that this aim, was achieved. To characterize the successful mutant structurally, we, determined several, partly atomic-resolution, crystal structures of, RADH-G37D both as an apo-enzyme and as ternary complex with NAD or NADH, and phenylethanol. The increased affinity of RADH-G37D for NAD(H) depends, on an interaction between the adenosine ribose moiety of NAD and the, inserted aspartate side-chain. A structural comparison between RADH-G37D, as apo-enzyme and as a part of a ternary complex revealed significant, rearrangements of Ser141, Glu144, Tyr189 and Met205 in the vicinity of the, active site. This plasticity contributes to generate a small hydrophobic, pocket for the methyl group typical for RADH substrates, and a hydrophobic, coat for the second, more variable and often aromatic, substituent. Around, Ser141 we even found alternative conformations in the backbone. A, structural adaptability in this region, which we describe here for the, first time for an SDR enzyme, is probably functionally important, because, it concerns Ser142, a member of the highly conserved catalytic tetrad, typical for SDR enzymes. Moreover, it affects an extended proton relay, system that has been identified recently as a critical element for the, catalytic mechanism in SDR enzymes.
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<StructureSection load='1zk3' size='340' side='right'caption='[[1zk3]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1zk3]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Levilactobacillus_brevis Levilactobacillus brevis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZK3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZK3 FirstGlance]. <br>
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</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>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1zk3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zk3 OCA], [https://pdbe.org/1zk3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zk3 RCSB], [https://www.ebi.ac.uk/pdbsum/1zk3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zk3 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q84EX5_LEVBR Q84EX5_LEVBR]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zk/1zk3_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1zk3 ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1ZK3 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Lactobacillus_brevis Lactobacillus brevis] with MG as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Alcohol_dehydrogenase_(NADP(+)) Alcohol dehydrogenase (NADP(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.2 1.1.1.2] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1ZK3 OCA].
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*[[Alcohol dehydrogenase 3D structures|Alcohol dehydrogenase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Atomic resolution structures of R-specific alcohol dehydrogenase from Lactobacillus brevis provide the structural bases of its substrate and cosubstrate specificity., Schlieben NH, Niefind K, Muller J, Riebel B, Hummel W, Schomburg D, J Mol Biol. 2005 Jun 17;349(4):801-13. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15896805 15896805]
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[[Category: Large Structures]]
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[[Category: Alcohol dehydrogenase (NADP(+))]]
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[[Category: Levilactobacillus brevis]]
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[[Category: Lactobacillus brevis]]
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[[Category: Hummel W]]
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[[Category: Single protein]]
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[[Category: Muller J]]
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[[Category: Hummel, W.]]
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[[Category: Niefind K]]
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[[Category: Muller, J.]]
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[[Category: Riebel B]]
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[[Category: Niefind, K.]]
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[[Category: Schlieben NH]]
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[[Category: Riebel, B.]]
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[[Category: Schomburg D]]
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[[Category: Schlieben, N.H.]]
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[[Category: Schomburg, D.]]
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[[Category: MG]]
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[[Category: magnesium dependence]]
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[[Category: r-specific alcohol dehydrogenase]]
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[[Category: short chain reductases/dehydrogenases]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 04:54:59 2007''
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Current revision

Triclinic crystal structure of the apo-form of R-specific alcohol dehydrogenase (mutant G37D) from Lactobacillus brevis

PDB ID 1zk3

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