1zi9: Difference between revisions

Revision as of 17:15, 21 February 2008

Crystal Structure Analysis of the dienelactone hydrolase (E36D, C123S) mutant- 1.5 A

OverviewOverview

The enzyme dienelactone hydrolase (DLH) has undergone directed evolution to produce a series of mutant proteins that have enhanced activity towards the non-physiological substrates alpha-naphthyl acetate and p-nitrophenyl acetate. In terms of steady-state kinetics, the mutations caused a drop in the K(m) for the hydrolysis reaction with these two substrates. For the best mutant, there was a 5.6-fold increase in k(cat)/K(m) for the hydrolysis of alpha-naphthyl acetate and a 3.6-fold increase was observed for p-nitrophenyl acetate. For alpha-naphthyl acetate the pre-steady-state kinetics revealed that the rate constant for the formation of the covalent intermediate had increased. The mutations responsible for the rate enhancements map to the active site. The structures of the starting and mutated proteins revealed small changes in the protein owing to the mutations, while the structures of the same proteins with an inhibitor co-crystallized in the active site indicated that the mutations caused significant changes in the way the mutated proteins recognized the substrates. Within the active site of the mutant proteins, the inhibitor was rotated by about 180 degrees with respect to the orientation found in the starting enzyme. This rotation of the inhibitor caused the displacement of a large section of a loop on one side of the active site. Residues that could stabilize the transition state for the reaction were identified.

About this StructureAbout this Structure

1ZI9 is a Single protein structure of sequence from Pseudomonas putida with and as ligands. Active as Carboxymethylenebutenolidase, with EC number 3.1.1.45 Full crystallographic information is available from OCA.

ReferenceReference

Following directed evolution with crystallography: structural changes observed in changing the substrate specificity of dienelactone hydrolase., Kim HK, Liu JW, Carr PD, Ollis DL, Acta Crystallogr D Biol Crystallogr. 2005 Jul;61(Pt 7):920-31. Epub 2005, Jun 24. PMID:15983415

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OCA

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-[[Image:1zi9.gif|left|200px]]<br /><applet load="1zi9" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1zi9.gif|left|200px]]<br /><applet load="1zi9" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1zi9, resolution 1.50&Aring;" />
 '''Crystal Structure Analysis of the dienelactone hydrolase (E36D, C123S) mutant- 1.5 A'''<br />
 ==Overview==
-The enzyme dienelactone hydrolase (DLH) has undergone directed evolution, to produce a series of mutant proteins that have enhanced activity towards, the non-physiological substrates alpha-naphthyl acetate and p-nitrophenyl, acetate. In terms of steady-state kinetics, the mutations caused a drop in, the K(m) for the hydrolysis reaction with these two substrates. For the, best mutant, there was a 5.6-fold increase in k(cat)/K(m) for the, hydrolysis of alpha-naphthyl acetate and a 3.6-fold increase was observed, for p-nitrophenyl acetate. For alpha-naphthyl acetate the pre-steady-state, kinetics revealed that the rate constant for the formation of the covalent, intermediate had increased. The mutations responsible for the rate, enhancements map to the active site. The structures of the starting and, mutated proteins revealed small changes in the protein owing to the, mutations, while the structures of the same proteins with an inhibitor, co-crystallized in the active site indicated that the mutations caused, significant changes in the way the mutated proteins recognized the, substrates. Within the active site of the mutant proteins, the inhibitor, was rotated by about 180 degrees with respect to the orientation found in, the starting enzyme. This rotation of the inhibitor caused the, displacement of a large section of a loop on one side of the active site., Residues that could stabilize the transition state for the reaction were, identified.
+The enzyme dienelactone hydrolase (DLH) has undergone directed evolution to produce a series of mutant proteins that have enhanced activity towards the non-physiological substrates alpha-naphthyl acetate and p-nitrophenyl acetate. In terms of steady-state kinetics, the mutations caused a drop in the K(m) for the hydrolysis reaction with these two substrates. For the best mutant, there was a 5.6-fold increase in k(cat)/K(m) for the hydrolysis of alpha-naphthyl acetate and a 3.6-fold increase was observed for p-nitrophenyl acetate. For alpha-naphthyl acetate the pre-steady-state kinetics revealed that the rate constant for the formation of the covalent intermediate had increased. The mutations responsible for the rate enhancements map to the active site. The structures of the starting and mutated proteins revealed small changes in the protein owing to the mutations, while the structures of the same proteins with an inhibitor co-crystallized in the active site indicated that the mutations caused significant changes in the way the mutated proteins recognized the substrates. Within the active site of the mutant proteins, the inhibitor was rotated by about 180 degrees with respect to the orientation found in the starting enzyme. This rotation of the inhibitor caused the displacement of a large section of a loop on one side of the active site. Residues that could stabilize the transition state for the reaction were identified.
 ==About this Structure==
-ZI9 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida] with SO4 and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Carboxymethylenebutenolidase Carboxymethylenebutenolidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.45 3.1.1.45] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1ZI9 OCA].
+ZI9 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida] with <scene name='pdbligand=SO4:'>SO4</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Carboxymethylenebutenolidase Carboxymethylenebutenolidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.45 3.1.1.45] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZI9 OCA].
 ==Reference==
@@ Line 14: / Line 14: @@
 [[Category: Pseudomonas putida]]
 [[Category: Single protein]]
-[[Category: Carr, P.D.]]
+[[Category: Carr, P D.]]
-[[Category: Kim, H.K.]]
+[[Category: Kim, H K.]]
-[[Category: Liu, J.W.]]
+[[Category: Liu, J W.]]
-[[Category: Ollis, D.L.]]
+[[Category: Ollis, D L.]]
 [[Category: GOL]]
 [[Category: SO4]]
@@ Line 28: / Line 28: @@
 [[Category: serine esterase]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 07:28:15 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:15:50 2008''