1Q5P

S156E/S166D variant of Bacillus lentus subtilisin

Summary for 1Q5P

• Entry DOI: 10.2210/pdb1q5p/pdb
• Descriptor: Serine protease, SULFATE ION, CALCIUM ION, ... (4 entities in total)
• Functional Keywords: serine protease, subtilisin, site-specific variant, altered flexibility, hydrolase
• Biological source: Bacillus lentus
• Cellular location: Secreted: P29600
• Total number of polymer chains: 1
• Total formula weight: 27117.84

Authors

Bott, R.R.,Chan, G.,Domingo, B.,Ganshaw, G.,Hsia, C.Y.,Knapp, M.,Murray, C.J. (deposition date: 2003-08-08, release date: 2003-11-11, Last modification date: 2025-03-26)

Primary citation

Bott, R.R.,Chan, G.,Domingo, B.,Ganshaw, G.,Hsia, C.Y.,Knapp, M.,Murray, C.J.
Do enzymes change the nature of transition states? Mapping the transition state for general acid-base catalysis of a serine protease
Biochemistry, 42:10545-10553, 2003

PubMed Abstract: 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 Brønsted 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.

PubMed: 12962477
DOI: 10.1021/bi034773m

Experimental method

X-RAY DIFFRACTION (1.6 Å)