1mra

From Proteopedia

MANDELATE RACEMASE MUTANT D270N CO-CRYSTALLIZED WITH (S)-ATROLACTATE

Overview

On the basis of the available high-resolution structures of mandelate, racemase (MR) from Pseudomonas putida [Landro, J.A., Gerlt, J.A., Kozarich, J.W., Koo, C.W., Shah, V.J., Kenyon, G.L., Neidhart, D.J., Fujita, J., & Petsko, G.A. (1994) Biochemistry 33, 635-643], Lys 166 and, His 297 are positioned appropriately to participate in catalysis as, acid/base catalysts, with Lys 166 participating as the (S)-specific, acid/base catalyst and His 297 participating as the (R)-specific acid/base, catalyst. The dependence of kcat on pH for the racemization of both (R)-, and (S)-mandelates suggests that the pKaS of the conjugate acids of Lys, 166 and His 297 are both approximately 6.4 [Landro, J.A., Kallarakal, A.T., Ransom, S.C., Gerlt, J.A., Kozarich, J.W., Neidhart, D.J., Kenyon, G.L. (1991) Biochemistry 30, 9274-9281; Kallarakal, A.T., Mitra, B., Kozarich, J.W., Gerlt, J.A., Clifton, J.R., Petsko, G.A., & Kenyon, G.L., (1995) Biochemistry 34, 2788-2797]. Both acid/base catalysts are in close, proximity to and approximately equidistant to the epsilon-ammonium group, of Lys 164 and the essential Mg2+. The positive electrostatic potential, provided by these cationic groups might be expected to increase the, acidities of the cationic conjugate acids of the acid/base catalysts, thereby explaining the depressed pKa of Lys 166 but not the "normal" pKa, of His 297. Asp 270 is hydrogen bonded of N delta of His 297 and, therefore, may allow the pKa of His 297 to be normal. In this paper we, report the structural and mechanistic properties of the mutant in which, Asp 270 is replaced with asparagine (D270N). The structure of D270N with, (S)-atrolactate bound in the active site reveals no geometric alterations, in the active site when compared to the structure of wild-type MR, complexed with (S)-atrolactate, with the exception that the side chain of, His 297 is tilted and displaced approximately 0.5 A away from Asn 270 and, toward the (S)-atrolactate. The kcatS for both (R)- and (S)-mandelates are, reduced approximately 10(4)-fold. In accord with the proposal that Asp 270, influences the pKa of His 297, in the (R)- to (S)-direction no ascending, limb is detected in the dependence of kcat of pH; instead, kcat decreases, from a low pH plateau as described by a pKa of 10. In the (S)- to, (R)-direction the dependence of kcat of pH is a bell-shaped curve that is, described by pKaS of 6.4 and 10. In analogy to the previously reported, properties of the H297N mutant [Landro, J.A., Kallarakal, A.T., Ransom, S.C., Gerlt, J.A., Kozarich, J.W., Neidhart, D.J., & Kenyon, G.L. (1991), Biochemistry 30, 9274-9281], D270N catalyzes both the facile exchange of, the alpha-proton of (S)- but not (R)-mandelate with solvent and the, stereospecific elimination of bromide ion from, (S)-p-(bromomethyl)mandalate. These observations suggest that His 297 and, Asp 270 function as a catalytic dyad, with Asp 270 being at least, partially responsible for the normal pKa of His 297 in wild-type MR.

About this Structure

1MRA is a Single protein structure of sequence from Pseudomonas putida with MG and APG as ligands. Active as Mandelate racemase, with EC number 5.1.2.2 Structure known Active Sites: ACT, CAR and MTL. Full crystallographic information is available from OCA.

Reference

Mechanism of the reaction catalyzed by mandelate racemase: structure and mechanistic properties of the D270N mutant., Schafer SL, Barrett WC, Kallarakal AT, Mitra B, Kozarich JW, Gerlt JA, Clifton JG, Petsko GA, Kenyon GL, Biochemistry. 1996 May 7;35(18):5662-9. PMID:8639525

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