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来自……的3-植酸酶A和3-植酸酶B的“计算机模拟”表征

"In Silico" Characterization of 3-Phytase A and 3-Phytase B from .

作者信息

Niño-Gómez Doris C, Rivera-Hoyos Claudia M, Morales-Álvarez Edwin D, Reyes-Montaño Edgar A, Vargas-Alejo Nury E, Ramírez-Casallas Ingrid N, Erkan Türkmen Kübra, Sáenz-Suárez Homero, Sáenz-Moreno José A, Poutou-Piñales Raúl A, González-Santos Janneth, Arévalo-Galvis Azucena

机构信息

Laboratorio de Biotecnología Molecular, Grupo de Biotecnología Ambiental e Industrial (GBAI), Departamento de Microbiología, Facultad de Ciencias, Pontificia Universidad Javeriana, Bogotá, Colombia.

Departamento de Química, Facultad de Ciencias Exactas y Naturales, Universidad de Caldas, Manizales, Caldas, Colombia.

出版信息

Enzyme Res. 2017;2017:9746191. doi: 10.1155/2017/9746191. Epub 2017 Nov 20.

Abstract

Phytases are used for feeding monogastric animals, because they hydrolyze phytic acid generating inorganic phosphate. 3-phytase A (PDB: 3K4Q) and 3-phytase B (PDB: 1QFX) were characterized using bioinformatic tools. Results showed that both enzymes have highly conserved catalytic pockets, supporting their classification as histidine acid phosphatases. 2D structures consist of 43% alpha-helix, 12% beta-sheet, and 45% others and 38% alpha-helix, 12% beta-sheet, and 50% others, respectively, and pI 4.94 and 4.60, aliphatic index 72.25 and 70.26 and average hydrophobicity of -0,304 and -0.330, respectively, suggesting aqueous media interaction. Glycosylation and glycation sites allowed detecting zones that can affect folding and biological activity, suggesting fragmentation. Docking showed that and act as nucleophiles and that and are proton donor residues. MW of 3K4Q (48.84 kDa) and 1QFX (50.78 kDa) is similar; 1QFX forms homodimers which will originate homotetramers with several catalytic center accessible to the ligand. 3K4Q is less stable (instability index 45.41) than 1QFX (instability index 33.66), but the estimated lifespan for 3K4Q is superior. Van der Waals interactions generate hydrogen bonds between the active center and O or H of the phytic acid phosphate groups, providing greater stability to these temporal molecular interactions.

摘要

植酸酶用于单胃动物饲料,因为它们能水解植酸生成无机磷酸盐。使用生物信息学工具对3 - 植酸酶A(蛋白质数据银行编号:3K4Q)和3 - 植酸酶B(蛋白质数据银行编号:1QFX)进行了表征。结果表明,这两种酶都有高度保守的催化口袋,支持将它们归类为组氨酸酸性磷酸酶。二维结构分别由43%的α - 螺旋、12%的β - 折叠和45%的其他结构,以及38%的α - 螺旋、12%的β - 折叠和50%的其他结构组成,其等电点分别为4.94和4.60,脂肪族指数分别为72.25和70.26,平均疏水性分别为 - 0.304和 - 0.330,表明它们与水性介质相互作用。糖基化和糖化位点有助于检测可能影响折叠和生物活性的区域,提示存在片段化。对接结果表明,[具体物质]充当亲核试剂,[具体物质]是质子供体残基。3K4Q(48.84 kDa)和1QFX(50.78 kDa)的分子量相似;1QFX形成同型二聚体,进而形成具有多个可被配体接近的催化中心的同型四聚体。3K4Q(不稳定指数45.41)比1QFX(不稳定指数33.66)稳定性更低,但3K4Q的估计寿命更长。范德华相互作用在活性中心与植酸磷酸基团的O或H之间形成氢键,为这些瞬时分子相互作用提供了更高的稳定性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/eb12/5733987/cbb70d59f308/ER2017-9746191.001.jpg

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