BT3010 Protein Engineering Syllabus:

BT3010 Protein Engineering Syllabus – Anna University Regulation 2021

OBJECTIVES:

To enable the students
 To identify the importance of protein biomolecules.
 To realize the structure-function relationships in proteins

UNIT I BONDS, ENERGIES, BUILDING BLOCKS OF PROTEINS

Covalent, Ionic, Hydrogen, Coordinate, hydrophobic and Vander walls interactions in protein structure. Interaction with electromagnetic radiation (radio, micro, infrared, visible, ultraviolet, Xray) and elucidation of protein structure. Amino acids (the students should be thorough with three and single letter codes) and their molecular properties (size, solubility, charge, pKa), Chemical reactivity in relation to post-translational modification (involving amino, carboxyl, hydroxyl, thiol, imidazole groups).

UNIT II PROTEIN ARCHITECTURE

Primary structure: peptide mapping, peptide sequencing – automated Edman method & massspec. High-throughput protein sequencing setup Secondary structure: Alpha, beta and loop structures and methods to determine Super-secondary structure: Alpha-turn-alpha, beta-turnbeta (hairpin), beta-sheets, alpha-beta-alpha, topology diagrams, up and down & TIM barrel structures nucleotide binding folds, prediction of substrate binding sites.

UNIT III TERTIARY STRUCTURE

Tertiary structure: Domains, folding, denaturation and renaturation, overview of methods to determine 3D structures. Quaternary structure: Modular nature, formation of complexes. Computer exercise on the above aspects

UNIT IV STRUCTURE-FUNCTION RELATIONSHIP

DNA-binding proteins: prokaryotic transcription factors, Helix-turn-Helix motif in DNA binding, Trp Repressor, Eukaryotic transcription factors, Zn fingers, helix-turn helix motifs in homeodomain, Leucine zippers. Membrane proteins: General characteristics, Transmembrane segments, prediction, bacteriorhodopsin and Photosynthetic reaction center, Immunoglobulins: IgG Light chain and heavy chain architecture, abzymes and Enzymes: Serine proteases, understanding catalytic design by engineering trypsin, chymotrypsin and elastase, substrate-assisted catalysis other commercial applications. Computer exercise on the above aspects

UNIT V PROTEOMICS

Introduction to the concept of proteome, components of proteomics, proteomic analysis, importance of proteomics in biological functions, protein-protein interactions and methods to study
it: protein arrays, cross linking methods, affinity methods, yeast hybrid systems and protein arrays. Computer exercise on the above aspects

TOTAL: 45 PERIODS

OUTCOMES:

Upon completion of this course the student will be able to
 Analyze the various interactions in protein makeup.
 Be familiar with different levels of protein structure.
 Know the role of functional proteins in various field of study.
 Practice the latest application of protein science in their research.
 Understand the major factors for protein folding.
 Analyze and compare protein sequence data.

TEXT BOOKS:

1. Branden C. and Tooze J., “Introduction to Protein Structured” 2nd Edition, Garland Publishing, 1999.
2. Creighton T.E. “Proteins” 2nd Edition. W.H. Freeman, 1993.
3. Pennington, S.R and M.J. Dunn, “Proteomics: Protein Sequence to Function”. Viva Books, 2002.
4. Liebler, “Introduction to Proteomics” Humana Press, 2002.

REFERENCES:

1. Voet D. and Voet G., “Biochemistry”. 3rd Edition. John Wiley and Sons, 2008.
2. Haggerty, Lauren M.“Protein Structure: Protein Science and Engineering”.Nova Science Publications, 2011.
3. Williamson, Mike “How Proteins Work”. Garland Science, 2012.