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铜绿假单胞菌乙醇脱氢酶与烟酰胺腺嘌呤二核苷酸还原型(NADH)和乙二醇的三元复合物。

The ternary complex of Pseudomonas aeruginosa alcohol dehydrogenase with NADH and ethylene glycol.

作者信息

Levin Inna, Meiri Gal, Peretz Moshe, Burstein Yigal, Frolow Felix

机构信息

Department of Organic Chemistry, Weizmann Institute of Science, 76100 Rehovot, Israel.

出版信息

Protein Sci. 2004 Jun;13(6):1547-56. doi: 10.1110/ps.03531404.

Abstract

Pseudomonas aeruginosa alcohol dehydrogenase (PaADH; ADH, EC 1.1.1.1) catalyzes the reversible oxidation of primary and secondary alcohols to the corresponding aldehydes and ketones, using NAD as coenzyme. We crystallized the ternary complex of PaADH with its coenzyme and a substrate molecule and determined its structure at a resolution of 2.3 A, using the molecular replacement method. The PaADH tetramer comprises four identical chains of 342 amino acid residues each and obeys ~222-point symmetry. The PaADH monomer is structurally similar to alcohol dehydrogenase monomers from vertebrates, archaea, and bacteria. The stabilization of the ternary complex of PaADH, the coenzyme, and the poor substrate ethylene glycol (k(cat) = 4.5 sec(-1); Km > 200 mM) was due to the blocked exit of the coenzyme in the crystalline state, combined with a high (2.5 M) concentration of the substrate. The structure of the ternary complex presents the precise geometry of the Zn coordination complex, the proton-shuttling system, and the hydride transfer path. The ternary complex structure also suggests that the low efficiency of ethylene glycol as a substrate results from the presence of a second hydroxyl group in this molecule.

摘要

铜绿假单胞菌乙醇脱氢酶(PaADH;ADH,EC 1.1.1.1)以NAD作为辅酶,催化伯醇和仲醇可逆氧化为相应的醛和酮。我们使PaADH与其辅酶和一个底物分子形成的三元复合物结晶,并使用分子置换法以2.3 Å的分辨率测定了其结构。PaADH四聚体由四条相同的链组成,每条链有342个氨基酸残基,具有~222点对称性。PaADH单体在结构上与来自脊椎动物、古细菌和细菌的乙醇脱氢酶单体相似。PaADH、辅酶和劣质底物乙二醇(k(cat) = 4.5 sec(-1);Km > 200 mM)形成的三元复合物的稳定性,是由于辅酶在晶体状态下的出口受阻,再加上底物的高浓度(2.5 M)。三元复合物的结构呈现了锌配位复合物、质子穿梭系统和氢化物转移路径的精确几何结构。三元复合物结构还表明,乙二醇作为底物效率低是由于该分子中存在第二个羟基。

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本文引用的文献

1
Processing of X-ray diffraction data collected in oscillation mode.
Methods Enzymol. 1997;276:307-26. doi: 10.1016/S0076-6879(97)76066-X.
2
Detecting folding motifs and similarities in protein structures.
Methods Enzymol. 1997;277:525-45. doi: 10.1016/s0076-6879(97)77029-0.
3
Refinement of macromolecular structures by the maximum-likelihood method.
Acta Crystallogr D Biol Crystallogr. 1997 May 1;53(Pt 3):240-55. doi: 10.1107/S0907444996012255.
4
Methods used in the structure determination of bovine mitochondrial F1 ATPase.
Acta Crystallogr D Biol Crystallogr. 1996 Jan 1;52(Pt 1):30-42. doi: 10.1107/S0907444995008754.
5
The CCP4 suite: programs for protein crystallography.
Acta Crystallogr D Biol Crystallogr. 1994 Sep 1;50(Pt 5):760-3. doi: 10.1107/S0907444994003112.
6
Raster3D Version 2.0. A program for photorealistic molecular graphics.
Acta Crystallogr D Biol Crystallogr. 1994 Nov 1;50(Pt 6):869-73. doi: 10.1107/S0907444994006396.
7
Crystal structure of a ternary complex of the alcohol dehydrogenase from Sulfolobus solfataricus.
Biochemistry. 2003 Dec 16;42(49):14397-407. doi: 10.1021/bi035271b.
8
Tetrameric NAD-dependent alcohol dehydrogenase.
Chem Biol Interact. 2003 Feb 1;143-144:239-45. doi: 10.1016/s0009-2797(02)00222-3.
9
Crystallization and preliminary X-ray diffraction studies of a novel alcohol dehydrogenase from the hyperthermophilic archaeon Aeropyrum pernix.
Acta Crystallogr D Biol Crystallogr. 2003 Jan;59(Pt 1):174-6. doi: 10.1107/s0907444902019649. Epub 2002 Dec 19.

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