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研究生:高晨
研究生(外文):Card Kao
論文名稱:蛋白質同步輻射圓二色光譜及二級結構估算之研究
論文名稱(外文):The Synchrotron Radiation Circular Dichroism (SRCD) and the estimation of secondary structure of Proteins
指導教授:黃維寧
指導教授(外文):Wei-Ning Huang
學位類別:碩士
校院名稱:元培科技大學
系所名稱:生物技術研究所
學門:醫藥衛生學門
學類:其他醫藥衛生學類
論文種類:學術論文
畢業學年度:102
語文別:中文
論文頁數:116
中文關鍵詞:圓二色光譜同步輻射蛋白質二級結構
外文關鍵詞:Circular dichroism spectroscopySynchrotron RadiationProtein secondary structure
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圓二色光譜(Circular Dichroism,CD)是一種應用左旋與右旋圓偏極光的吸收差值光譜。傳統圓二色光譜因受限光源的因素,因此無法偵測到真空紫外光波段,然而應用同步輻射光源測定的圓二色光譜(Synchrotron Radiation Circular Dichroism,SRCD)則可以將偵測波段向下延伸到真空紫外光波段。透過圓二色光譜可以針對蛋白質的二級結構所含比例進行有效的估算,因此我們開發出一個新的蛋白質圓二色光譜二級結構估算程式CD_Fit5,此程式估算方法如下,首先搜尋蛋白質圓二色光譜資料集與NRMSD最小值的標準蛋白質圓二色光譜進行相減配對;其次,將剩餘光譜利用100%二級結構胜肽圓二色光譜的資料集以NRMSD最小值為標準的進行線性組合光譜,最後總合上述兩項結果藉此估算蛋白質二級結構的比例。
本論文我們使用SRCD收集許多標準蛋白質以及在特殊條件所測定的多胜肽圓二色光譜作為CD_Fit5所需光譜資料集,並且進行最佳化,使所估算的二級結構比例結果接近實際值,最後與其他已發表的計算程式SELCON3、CDSSTR等相互比較。經比較結果顯示,通過最佳化後光譜資料集的CD_Fit5已經可以與其他二級結構估算程式所估算出來的蛋白質二級結構結果相似甚至更接近實際值。

Circular dichroism (CD) is an absorption difference spectrum of left and right circularly polarized light. Traditional circular dichroism unable to detect the vacuum ultraviolet spectra because the light source limiting.Synchrotron radiation circular dichroism (SRCD) can measure the extending wavelength to vacuum ultraviolet range. CD spectra can estimate the proportion ofprotein secondary structure effectively. We developed a newprogram,CD_Fit5, which estimates protein secondary structure, it first searchsand matchs a CD spectrum froma data setby NRMSD criterion.
Secondly, the residued spectra of subtractedqueryspectrum by match protein was constructed by linear combination of 4 peptides of 100% secondary structure of helix, beta, turn and coil. Finally, take the sum of these two results to estimate the proportion of protein secondary structure .
For CD_Fit5optimizeddatasets, we use the SRCD collect many CD spectra of standard peptide/proteins in some special conditions and we alsocompared a few published computing program, such as SELCON3, CDSSTR so on. It showed that the estimation of protein secondary structure by optimizing dataset of CD_Fit5 have similar results as published programs, even closer to the actual value.

中文摘要.....I
英文摘要.....II
總目錄.....IV
中英文縮寫名詞對照表.....IX

目錄
第一章緒論.....1
1.1. 引言:.....1
1.2. 圓二色光譜的發展:.....2
1.3. 圓二色光譜的原理:.....4
1.3.1. 圓二色光源的原理:.....4
1.3.2. 圓二色光譜的應用及偵測原理:.....5
1.3.3. 圓二色光譜的換算公式:.....6
1.3.4. 蛋白質及多胜肽的二級結構圓二色光譜:.....8
1.3.5. 圓二色光譜的二級結構估算: 9
1.3.6. 圓二色光譜的二級結構估算準確性:.....10
1.4. 同步輻射圓二色光譜儀(SRCD):.....11
1.4.1. 同步輻射及同步輻射加速器:.....11
1.4.2. 同步輻射圓二色光譜儀(SRCD):.....12
1.5. 研究目的:.....13

第二章材料與方法.....14
2.1實驗材料.....14
2.1.1. 蛋白質:.....14
2.1.2. 多胜肽:.....14
2.1.3. 藥品:.....14
2.1.3. 儀器:.....15
2.1.4. 耗材:.....15
2.1.5. 軟體:.....15
2.2. 實驗方法.....16
2.2.1. 蛋白質樣品製備:.....16
2.2.2. 多胜肽樣品製備:.....18
2.2.3.圓二色光譜儀實驗.....19
2.2.4.圓二色光譜蛋白質二級結構估算.....21

第三章結果.....27
3.1. 同步輻射圓二色光譜儀(SRCD)校正:.....27
3.2.同步輻射圓二色光譜儀(SRCD)測試.....27
3.3. 圓二色光譜資料集收集 .....28
3.3.1. 蛋白質圓二色光譜資料集:.....28
3.3.2. 100%二級結構多胜肽圓二色光譜資料集:.....28
3.4. 蛋白質圓二色光譜資料集最佳化調整:.....29
3.5. 蛋白質二級結構估算程式相互比較:.....34

第四章討論.....36
4.1.同步輻射圓二色光譜儀(SRCD)校正.....36
4.2.同步輻射圓二色光譜儀(SRCD)測試.....36
4.3. 圓二色光譜資料集收集 .....37
4.3.1 蛋白質圓二色光譜資料集.....37
4.3.2. 100%二級結構多胜肽圓二色光譜資料集:.....38
4.4. 蛋白質圓二色光譜資料集最佳化調整:.....39
4.5. 蛋白質二級結構估算程式相互比較:.....41

第五章 結論.....43
第六章 圖表....44
第七章 參考文獻...105
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