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研究生: 張晉碩
Chang, Chin-Shuo
論文名稱: 嗜甲烷菌甲烷單加氧黴次單元B之點突變性質探討
Site-directed Mutagenesis Study of Subunit B in Particulate Methane Monooxygenase from Methylococcus capsulatus (Bath)
指導教授: 俞聖法
Yu, Sheng-Fa
共同指導教授: 黃守仁
Whang, Thou-Jen
學位類別: 碩士
Master
系所名稱: 理學院 - 化學系
Department of Chemistry
論文出版年: 2014
畢業學年度: 102
語文別: 中文
論文頁數: 110
中文關鍵詞: 嗜甲烷菌西方墨點法定點突變微量金屬定量
外文關鍵詞: Membrane protein, particulate methane monooxygenase (pMMO), Methylococcus capsulatus (Bath), Escherichia coli, copper homeostasis
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  • 從嗜甲烷菌Methylcoccus capsulatus(Bath)中分離的微粒型甲烷單加氧酶次單元B,在過去的研究中證實了他與還原態的銅離子有著高度的親合力,但在文獻中根據現有的結晶結構中,只包含三個銅離子。我們認為在微粒型甲烷單加氧酶次單元B上,擁有著E-cluster扮演著傳遞電子的角色,因此探討銅離子與該暴露水層蛋白質間親和鍵結能力以及正確定出銅離子與蛋白質之間的量是很重要的議題。
    本篇論文的重點環繞在定點突變及突變後的銅離子差異,我們利用基因工程技術,將微粒型甲烷單加氧酶次單元B透過重組的方式達到有效純化蛋白質的效果;接著利用西方墨點法,透過抗體與MBP蛋白專一性,將其中蛋白質有效的定出內含濃度,並加上ICP-OES之精準的微量金屬定量,計算出蛋白質與銅離子的實際含量;又使用X光吸收光譜,仰賴其靈敏性,相對定量出蛋白質中銅離子之比例;將西方墨點法之精準蛋白質濃度與ICP-OES高準確微量金屬定量再加上X光吸收光譜之靈敏金屬比例分析,計算出互相吻合之定點突變蛋白質銅離子含量。
    最後將定點突變蛋白質膜與原始蛋白質膜以及純化後的蛋白質做互相比較,歸納出定點突變與原始蛋白質對於其中內含銅離子的鍵結能力以及其數目多寡的區別。

    The PmoB subunit of pMMO from Methylococcus capsulatus (Bath) exhibits strong affinity towards CuI. The C-terminal aqueous sub-domain of PmoB is capable of sequestering ca. 10 reduced coppers, and it has been proposed that these CuI serve as a reservoir of reducing equivalents for methane oxidation in the holo enzyme. To confirm the high copper affinity in the full subunit, we have translocated and over-expressed the PmoB fused with the maltose-binding protein (MBP) into a number of E. coli strains. The recombinant PmoBs are verified by Western blotting of the antibodies against both MBP and copper-enriched PmoB. Using ICP-OES to confirm metal content. The recombinant PmoBs will show some information by X-ray absorption spectroscopy. When a bacterial strain BCRC®50305 tolerant against CuCl2 up to 3.1 mM is grown with the pmoB gene in 1.0 mM CuII, the E. coli behaves like M. capsulatus (Bath) cultured under high copper stress with abundant membrane accumulation and high CuI content. These results suggest that both M. capsulatus (Bath) and E. coli variants bear similar capacities for membrane production and incorporation of cellular CuI under copper stress. With control over copper homeostasis, the E. coli variants assist the pMMO B subunit to assemble into the cytoplasmic membrane and achieve maturation.

    摘要 I Extended Abstract II 誌謝 VII 目錄 X 表目錄 XIV 圖目錄 XV 第一章 緒論 1 一、 地球資源與環境 1 1、 地球的能源 1 2、 溫室效應(Greenhouse effect) 2 3、 能源再利用 4 二、 嗜甲烷菌 6 1、 嗜甲烷菌對地球的重要 6 2、 好氧性嗜甲烷菌的分類 7 3、 好氧性嗜甲烷菌Methylococcus capsulatus(Bath) 11 4、 嗜甲烷菌之應用 14 三、 M. capsulatus(Bath)甲烷單加氧酶表現 16 1、 甲烷單加氧酶 16 2、 可溶型與微粒型甲烷單加氧化酶的表現 19 四、 微粒型甲烷單加氧酶的結構分析 22 1、 微粒型甲烷單加氧酶電子傳遞模型 22 五、 電子順磁共振(Electron Paramagnetic Resonance,EPR) 24 六、 X光吸收近邊緣結構(XANES)與延伸X光吸收近邊緣細微結構(EXAFS)分析法 26 七、 西方墨點法(Western blot) 29 八、 研究目的 30 第二章 實驗 34 一、 藥品試劑 34 二、 儀器設備 38 1、 二位分析天平(2-Decimal Balance) 38 2、 四位分析天平(4-Decimal Balance) 38 3、 純水製造系統(Water Purification systems) 38 4、 高溫烘箱(Oven) 38 5、 真空系統(Vacuum Line Systems) 38 6、 微電腦酸鹼度計(pH Meter) 38 7、 高溫高壓滅菌釜(Autoclave) 38 8、 旋轉式恆溫震盪培養箱(Orbital Shanker Incubator) 38 9、 無菌操作台(Laminar Flow) 38 10、 強力震盪器(Vortex) 39 11、 氣密室培養缸(Jax) 39 12、 低溫冷凍箱(Low Temperature Freezer) 39 13、 小型高速離心機(Spin) 39 14、 微量離心機(Centrifuge) 39 15、 多功能高速離心機(Centrifuge) 39 16、 高速冷凍離心機(Centrifuge) 39 17、 超高速冷凍離心機(Ultra Centrifuge) 39 18、 紫外光譜儀(Ultraviolet-Visible Spectrophotometer) 40 19、 低溫循環水槽(Cooling Bath Circulator) 40 20、 加熱乾浴槽(Dry Heating Bath) 40 21、 溫度循環控制儀(Thermocycler) 40 22、 高壓均質機(French Pressure Cell Press) 40 23、 微電腦超音坡均質機(Sonicator) 40 24、 超過濾濃縮(Ultrafiltration Apparatus) 40 25、 蛋白質分析(Protein assay) 40 26、 瓊脂水平膠體電泳(Agar Horizontal gel Electrophoresis) 41 27、 十二磺酸垂直膠體電泳(SDS Vertical Slab Gel Electrophoresis) 41 28、 電泳動力源(Electrophoresis Power Source) 44 29、 迴轉式搖擺震盪器(Orbital Shaker) 44 30、 膠體電泳照相系統 44 31、 圓偏光二色性光譜(Circular Dicroism,CD) 44 32、 離心濃縮管(Amicon Ultra Centrifugal Filter Units) 44 33、 超高產量微波消化系統(Microwave Digestion System) 44 34、 X光吸收精細結構光譜(X-ray absorption spectroscopy) 44 35、 無氧操作腔(Anaerobic Chamber) 45 36、 電子順磁共振光譜儀(Electron paramagnetic resonance spectroscopy,EPR) 45 37、 感應耦合電漿-原子放射光譜(Inductively Coupled Plasma with Atomic Emission Spectroscopy) 45 三、 利用基因工程方式部份表達微粒型單加氧酶 46 1、 抽取染色體基因(DNA Extraction) 46 2、 聚合酶連鎖反應(Polymerase Chain Reaction,PCR) 47 3、 限制酶反應 49 4、 接合反應將表達基因嵌入表現載體中 49 5、 聚合酶連鎖反應鑑定接合反應 50 6、 轉殖至表現宿主細胞 51 四、 定點突變(Site-directed mutagenesis,SDM)變(Site-directed mutagenesis,SDM) 51 1、 引子設計 51 2、 聚合酶連鎖反應(Polymerase Chain Reaction,PCR) 53 3、 大量複製選殖載體(cloning vector) 54 4、 蛋白質表達 56 五、 蛋白質定量 60 1、 西方墨點法(Western blotting) 60 2、 MBP蛋白質濃度計算 61 六、 ICP-OES金屬含量分析 61 七、 X-ray吸收光譜(X-ray Absorption Spectroscopy) 61 八、 銅離子定量分析 62 1、 標準曲線 62 2、 銅一價離子濃度測定 62 第三章 實驗結果與討論 63 一、 desP_pmoB定點突變 63 1、 desP_pmoB培養 63 2、 desP_pmoB質體DNA抽取 64 3、 desP-pmoB定點突變(Y374F,Y374S,M300L)之PCR產物 65 4、 desP_pmoB定點突變(Y374F,Y374S,M300L) 65 二、 蛋白質表現與純化 67 1、 重組蛋白質純化 67 2、 西方墨點法 71 三、 蛋白質定量 72 1、 西方墨點法標準定量檢量線 72 2、 未知濃度desP_pmoB蛋白質定量 75 四、 ICP-OES蛋白質金屬銅定量 77 五、 XANES 81 1、 deSP_PmoB membrane 81 2、 deSP_pmoB純化蛋白質 85 3、 iron&copper ratio 86 六、 討論 89 第四章 結論 94 參考文獻 96 附錄一 102 附錄二 105 附錄三 108

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