課程資訊
課程名稱
分子辨識
Molecular Recognition 
開課學期
110-1 
授課對象
生命科學院  基因體與系統生物學學位學程  
授課教師
徐駿森 
課號
AC5066 
課程識別碼
623 U4340 
班次
 
學分
2.0 
全/半年
半年 
必/選修
選修 
上課時間
星期三8,9(15:30~17:20) 
上課地點
農化一第五 
備註
總人數上限:20人 
Ceiba 課程網頁
http://ceiba.ntu.edu.tw/1101AC5066_MR 
課程簡介影片
 
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課程概述

分子辨識課程是應用結構生物、化學生物與分子生物學來探討生命科學的一門課。無論在動物、植物或是微生物的系統,生命現象從微觀的角度來看就是細胞內生物分子經由交互作用而造成訊息傳遞與命令執行之功能。此外,醫學或農業上的病毒或病菌感染、也是藉由特定分子的辨識為起始,進而入侵宿主。瞭解這些生物分子之分子辨識作用,除了能說明其作用機制,並在應用上可發展策略用於抑制或促進其辨識作用及生物活性。
 

課程目標
此課程以深入淺出的方式,一開始說明分子辨識的化學原理,接著介紹各項研究分子交互作用之結構與生物物理工具。並以數個具有啟發性的生物交互作用系統為範例。最後由文獻討論來讓參與課程者能將分子結構觀念帶入本身正在研究或有興趣的領域。
 
課程要求
歡迎大三以上與研究所不同背景學生,但若未修過生物化學,請先與老師溝通。 
預期每週課後學習時數
 
Office Hours
每週三 13:00~15:00 
參考書目
Arthur M. Lesk, (2004). Introduction of Protein Science. Oxford University Press.
Gordon C.K. Roberts, (2000). NMR of Macromolecules-A practical approach, Oxford University Press.
Gale Rhodes, (2000). Crystallography Made Crystal Clear, Academic Press
 
指定閱讀
 
評量方式
(僅供參考)
 
No.
項目
百分比
說明
1. 
報告 
30% 
 
2. 
作業 
20% 
 
3. 
期末考 
30% 
 
4. 
期中考 
20% 
 
 
課程進度
週次
日期
單元主題
第1週
09/22  Introduction
(第一週課程介紹,以Webax線上會議進行)
加退選結束前,若想加入會議,請mail徐老師



從會議鏈結加入
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透過會議號加入
會議號(存取碼): 2525 798 7989
會議密碼: 8c85kT4cv62
點選以從行動裝置加入(僅出席者)
+65-6703-6949,,25257987989## Singapore Toll 
第2週
09/29  Structural and Chemical Properties of Biological Macromolecules


從會議鏈結加入
https://ntucc.webex.com/ntucc/j.php?MTID=m16e7608424770c26377c2fbf728c55cf
透過會議號加入
會議號(存取碼): 2525 798 7989
會議密碼: 8c85kT4cv62
點選以從行動裝置加入(僅出席者)
+65-6703-6949,,25257987989## Singapore Toll
透過電話加入
+65-6703-6949 Singapore Toll 
第3週
10/06  Protein Crystallography



從會議鏈結加入
https://ntucc.webex.com/ntucc/j.php?MTID=m16e7608424770c26377c2fbf728c55cf
透過會議號加入
會議號(存取碼): 2525 798 7989
會議密碼: 8c85kT4cv62
點選以從行動裝置加入(僅出席者)
+65-6703-6949,,25257987989## Singapore Toll
透過電話加入
+65-6703-6949 Singapore Toll 
第4週
10/13  Electron Microscopy 
第5週
10/20  Principle of Nuclear Magnetic Resonance Spectroscopy:
(I)Biomolecular NMR technique 
第6週
10/27  Principle of Nuclear Magnetic Resonance Spectroscopy:
(II)Multi-dimesional NMR for protein determination 
第7週
11/03  Structural Bioinformatics 
第9週
11/17  Biophysical Methods to Probe Non-covalent Molecular Interaction (I):Circular Dichroism, UV and Fluorescence Spectroscopy 
第10週
11/24  Biophysical Methods to Probe Non-covalent Molecular Interaction (II):Surface Plasmon Resonance, ITC and Analytical Ultracentrifugation 
第11週
12/01  Structural Basis of Signal Transduction and Post-translation Modification
(農化導論) 
第12週
12/08  Molecular Enzymology (1. 呂岡 3. 曾譯禾 4. 賴珈玟) 
第13週
12/15  Protein/peptide interaction with membrane (5. 曾詠銘 6. 黃資庭 7. 陳妤嫣 8. 謝允成) 
第14週
12/22  Structural Features of Receptors and ligands (9. 羅中聖 10. 陳一婷 11.吳繐君 12. 廖小惟) 
第15週
12/29  Structural View of Protein-DNA Recognition in Gene Regulation (13. 曹捷晰 14. 林家名 15. 羅寶修 16. 黃鈺涵 ) 
第16週
01/05  Molecular Docking and Bioinformatics Approach:Strategies for Drug Discovery, Rational Drug Design versus Drug screen (17. 陳立 18. 鄧韻潔 19. 葉奕均 2. 莊明耀) 
第17週
01/12  補充課程
1. 廖小惟
Marie Wensien et al. A lysine–cysteine redox switch with an NOS bridge regulates enzyme function. Nature, 2021, doi:10.1038/s41586-021-03513-3.
2. 陳一婷
Ting-Sung Hsieh et al. Dynamic remodeling of host membranes by self-organizing bacterial effectors. Science 372, 935–941 (2021)
3. 陳妤嫣
Hayley L Knox et al. Structural basis for non-radical catalysis by TsrM, a radical SAM methylase. Nature Chemical Biology. 2021 Apr;17(4):485-491. doi: 10.1038/s41589-020-00717-y
4. 曾詠銘
Xiaojie Yang et al. Molecular basis for ubiquitin ligase CRL2FEM1C-mediated recognition of C-degron. Nature Chemical Biology volume 17, pages 263–271 (2021)
5. 黃鈺涵
Beth M. Hayes et al. Ticks Resist Skin Commensals with Immune Factor of Bacterial Origin. Cell 183, 1562–1571 (2020)
6. 鄧韻潔
Thomas F. Durand-Réville et al. ETX2514 is a broad-spectrum β-lactamase inhibitor for the treatment of drug-resistant Gram-negative bacteria including Acinetobacter baumannii. Nature Microbiology 2, 17104 (2017)
7. 吳繐君
Lena Nasser et al. Structural basis of haem-iron acquisition by fungal pathogens. Nature Microbiology 1, 16156 (2016)
8. 羅中聖
Viktoriya Shyp et al. Reciprocal growth control by competitive binding of nucleotide second messengers to a metabolic switch in Caulobacter crescentus. Nature Microbiology 6, 59–72 (2021)
9. 葉奕均
Steven Johnson et al. Symmetry mismatch in the MS-ring of the bacterial flagellar rotor explains the structural coordination of secretion and rotation. Nature Microbiology 5, 966–975 (2020)
10. 賴珈汶
Qiang Wang et al. Structural basis of the arbitrium peptide–AimR communication system in the phage lysis–lysogeny decision.Nature Microbiology 3, 1266–1273 (2018) 
第18週
01/19  補充課程
11. 林家名
Jing Zhao et al. EGCG binds intrinsically disordered N-terminal domain of p53 and disrupts p53-MDM2 interaction. Nature Communications 12, 986 (2021)
12. 曹捷晰
Umar Shahul Hameed et al. Structural basis for specific inhibition of the highly sensitive ShHTL7 receptor.EMBO Reprts 19, e45619 (2018)
13. 陳立
Philip Hinchliffe et al. Cross-class metallo-β-lactamase inhibition by bisthiazolidines reveals multiple binding modes. (2016) 113 (26) E3745-E3754.
14. 曾譯禾
William R. Birmingham et al. Toward scalable biocatalytic conversion of 5-hydroxymethylfurfural by galactose oxidase using coordinated reaction and enzyme engineering. (2021) Nature Communications 12, 4946.
15.
Arjun Bhatta et al. Structural basis of RNA processing by human mitochondrial RNase P. (2021) Nature Structural & Molecular Biology 28, 713–723
16. 黃資庭
Do Hoon Kwon et al. Heat-dependent opening of TRPV1 in the presence of capsaicin. (2021) Nature Structural & Molecular Biology 28, 554–563.
17. 呂岡
Jinwoo Lee et al. Ebola virus glycoprotein interacts with cholesterol to enhance membrane fusion and cell entry. (2021) Nature Structural & Molecular Biology 28, 181–189.
18. 羅寶修
Maximilian M. Sauer et al. Structural basis for broad coronavirus neutralization. (2021) Nature Structural & Molecular Biology 28, 478–486
19. 莊明耀
Wanchao Yin et al. Structural basis for inhibition of the SARS-CoV-2 RNA polymerase by suramin. (2021) Nature Structural & Molecular Biology 28, 319–325.
20.
Jiandong Huo et al. Neutralizing nanobodies bind SARS-CoV-2 spike RBD and block interaction with ACE2. (2021) Nature Structural & Molecular Biology 27, 846–854.
21.
Fujiao Lv et al. An amphipathic Bax core dimer forms part of the apoptotic pore wall in the mitochondrial␣membrane. (2021) EMBO J 40:e106438
22.
Junfeng Ma et al. Structural mechanism for modulation of functional amyloid and biofilm formation by Staphylococcal Bap protein switch. (2021) EMBO J 40:e107500
23. 謝允成
Ya Peng et al. Structures of the SARS-CoV-2 nucleocapsid and their perspectives for drug design. (2020) EMBO J 39:e105938