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課程資訊

課程名稱	結構生化學 Structural Biochemistry
開課學期	110-2
授課對象	生命科學院生化科學研究所
授課教師	陳佩燁
課號	BChem7040
課程識別碼	B46 M1420
班次
學分	2.0
全/半年	半年
必/選修	必修
上課時間	星期五3,4(10:20~12:10)
上課地點
備註	上課地點：中研院生化所209室。與徐尚德、何孟樵、吳昆合授總人數上限：52人

課程簡介影片
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課程概述	This course will cover fundamental aspects of biological chemistry, structural biology, and chemical biology. Compared to undergraduate level biochemistry, this course will emphasize molecules, mechanisms, structures, and major techniques in structural biochemistry
課程目標	The goal for this course is to make sure that every graduate student in IBC, including both master and Ph. D. students, and regardless of chemistry or biology background, will have acquired the up-to-date knowledge in biological chemistry, including chemical biology and structural biochemistry.
課程要求
預期每週課後學習時數
Office Hours
指定閱讀
參考書目
評量方式 (僅供參考)

課程進度

週次	日期	單元主題
第1週	2/18	Course introduction Protein structure (Chap 2): introduce amino acids, protein secondary structure Build up secondary structures using amino acid models (Practice, homework) 授課老師：陳佩燁
第2週	2/25	Use molecular modeling software to display your protein (SwissPDBviewer) (Practice, homework) Topology and motif Protein folding theory, protein structural stability, protein folding kinetics * bring laptop for in-class practices 授課老師：陳佩燁
第3週	3/04	Chaperone Protein misfolding, amyloid, misfolding-related diseases 授課老師：陳佩燁
第4週	3/11	Understanding cell biology from structural biology aspect (Chap 11) Importance of visualization Seeing molecular mechanism in cell signaling How protein kinases work 授課老師：何孟樵
第5週	3/18	Protein expression Basic concept of protein biogenesis Practical consideration of recombinant protein production What can you do if you doesn’t get your protein 授課老師：何孟樵
第6週	3/25	Protein crystallography The importance of resolution General concept of protein crystallography What protein crystallography can and cannot do How to visualize/evaluate the result 授課老師：何孟樵
第7週	4/01	期中考
第8週	4/08	Protein sequence and structure Bioinformatic analysis of sequence Structural modeling Intrinsically disordered protein 授課老師：吳昆峯
第9週	4/15	Molecular viewer introduction, PyMOL tutorial and practices * bring laptop for in-class practices ** Homework will be assigned. 授課老師：吳昆峯
第10週	4/22	Protein misfolded and amyloid fibrils Introduction of amyloid fibrils Practical analysis of amyloid fibrils using ChimeraX and PyMOL * bring laptop for in-class practices ** Homework will be assigned 授課老師：吳昆峯
第11週	4/29	Cryogenic electron microscopy Theory and practical aspects Biological application Data visualization and analysis using ChimeraX * bring laptop for in-class practices ** Homework will be assigned. 授課老師：吳昆峯
第12週	5/06	Principles of biomolecular NMR spectroscopy Basic NMR experiments for protein structure determination and interactions Advanced NMR tools for studying challenging biological systems *Hands on exercise: visualization of membrane protein structures by PyMol 授課老師：徐尚德
第13週	5/13	Practical aspects of biomolecular NMR spectroscopy Chemical shift assignments Protein dynamics and interactions NMR titration analysis Protein dynamics **Hands on exercise: deriving free energy of unfolding for individual residues by HDX data 授課老師：徐尚德
第14週	5/20	Structural mapping of NMR observables by PyMol Defining binding sites by chemical shift perturbations Describing protein dynamics by relaxation dynamics parameters – T1/T2/hetNOE and HDX *Homework will be assigned to analyze NMR-derived information in 3D protein structures 授課老師：徐尚德
第15週	5/27	期末考