1q5p
From Proteopedia
(New page: 200px<br /><applet load="1q5p" size="450" color="white" frame="true" align="right" spinBox="true" caption="1q5p, resolution 1.6Å" /> '''S156E/S166D variant o...) |
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| - | [[Image:1q5p.jpg|left|200px]]<br /><applet load="1q5p" size=" | + | [[Image:1q5p.jpg|left|200px]]<br /><applet load="1q5p" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1q5p, resolution 1.6Å" /> | caption="1q5p, resolution 1.6Å" /> | ||
'''S156E/S166D variant of Bacillus lentus subtilisin'''<br /> | '''S156E/S166D variant of Bacillus lentus subtilisin'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The properties of the transition state for serine protease-catalyzed | + | The properties of the transition state for serine protease-catalyzed hydrolysis of an amide bond were determined for a series of subtilisin variants from Bacillus lentus. There is no significant change in the structure of the enzyme upon introduction of charged mutations S156E/S166D, suggesting that changes in catalytic activity reflect global properties of the enzyme. The effect of charged mutations on the pK(a) of the active site histidine-64 N(epsilon)(2)-H was correlated with changes in the second-order rate constant k(cat)/K(m) for hydrolysis of tetrapeptide anilides at low ionic strength with a Bronsted slope alpha = 1.1. The solvent isotope effect (D)2(O)(k(cat)/K(m))(1) = 1.4 +/- 0.2. These results are consistent with a rate-limiting breakdown of the tetrahedral intermediate in the acylation step with hydrogen bond stabilization of the departing amine leaving group. There is an increase in the ratio of hydrolysis of succinyl-Ala-Ala-Pro-Phe-anilides for p-nitroaniline versus aniline leaving groups with variants with more basic active site histidines that can be described by the interaction coefficient p(xy) = delta beta(lg)/delta pK(a) (H64) = 0.15. This is attributed to increased hydrogen bonding of the active site imidazolium N-H to the more basic amine leaving group as well as electrostatic destabilization of the transition state. A qualitative characterization of the transition state is presented in terms of a reaction coordinate diagram that is defined by the structure-reactivity parameters. |
==About this Structure== | ==About this Structure== | ||
| - | 1Q5P is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_lentus Bacillus lentus] with SO4 and CA as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] Full crystallographic information is available from [http:// | + | 1Q5P is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_lentus Bacillus lentus] with <scene name='pdbligand=SO4:'>SO4</scene> and <scene name='pdbligand=CA:'>CA</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q5P OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Subtilisin]] | [[Category: Subtilisin]] | ||
| - | [[Category: Bott, R | + | [[Category: Bott, R R.]] |
[[Category: Chan, G.]] | [[Category: Chan, G.]] | ||
[[Category: Domingo, B.]] | [[Category: Domingo, B.]] | ||
[[Category: Ganshaw, G.]] | [[Category: Ganshaw, G.]] | ||
| - | [[Category: Hsia, C | + | [[Category: Hsia, C Y.]] |
[[Category: Knapp, M.]] | [[Category: Knapp, M.]] | ||
| - | [[Category: Murray, C | + | [[Category: Murray, C J.]] |
[[Category: CA]] | [[Category: CA]] | ||
[[Category: SO4]] | [[Category: SO4]] | ||
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[[Category: subtilisin]] | [[Category: subtilisin]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:36:09 2008'' |
Revision as of 12:36, 21 February 2008
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S156E/S166D variant of Bacillus lentus subtilisin
Overview
The properties of the transition state for serine protease-catalyzed hydrolysis of an amide bond were determined for a series of subtilisin variants from Bacillus lentus. There is no significant change in the structure of the enzyme upon introduction of charged mutations S156E/S166D, suggesting that changes in catalytic activity reflect global properties of the enzyme. The effect of charged mutations on the pK(a) of the active site histidine-64 N(epsilon)(2)-H was correlated with changes in the second-order rate constant k(cat)/K(m) for hydrolysis of tetrapeptide anilides at low ionic strength with a Bronsted slope alpha = 1.1. The solvent isotope effect (D)2(O)(k(cat)/K(m))(1) = 1.4 +/- 0.2. These results are consistent with a rate-limiting breakdown of the tetrahedral intermediate in the acylation step with hydrogen bond stabilization of the departing amine leaving group. There is an increase in the ratio of hydrolysis of succinyl-Ala-Ala-Pro-Phe-anilides for p-nitroaniline versus aniline leaving groups with variants with more basic active site histidines that can be described by the interaction coefficient p(xy) = delta beta(lg)/delta pK(a) (H64) = 0.15. This is attributed to increased hydrogen bonding of the active site imidazolium N-H to the more basic amine leaving group as well as electrostatic destabilization of the transition state. A qualitative characterization of the transition state is presented in terms of a reaction coordinate diagram that is defined by the structure-reactivity parameters.
About this Structure
1Q5P is a Single protein structure of sequence from Bacillus lentus with and as ligands. Active as Subtilisin, with EC number 3.4.21.62 Full crystallographic information is available from OCA.
Reference
Do enzymes change the nature of transition states? Mapping the transition state for general acid-base catalysis of a serine protease., Bott RR, Chan G, Domingo B, Ganshaw G, Hsia CY, Knapp M, Murray CJ, Biochemistry. 2003 Sep 16;42(36):10545-53. PMID:12962477
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