PY8019 - PROTEIN STRUCTURE, FUNCTION AND PROTEOMICS (Syllabus) 2017-regulation Anna University

PY8019 - PROTEIN STRUCTURE, FUNCTION AND PROTEOMICS (Syllabus) 2017-regulation Anna University

PY8019

PROTEIN STRUCTURE, FUNCTION AND PROTEOMICS

 LPTC

3003

OBJECTIVES: To enable the students
• To identify the importance of protein biomoleculesto access, use and evaluate the information available in protein databases to find about a protein of interest.
• To realize and explain key concepts in protein function such as affinity and specificity, allosteric regulation.

UNIT I

BONDS, ENERGIES, BUILDING BLOCKS OF PROTEINS

9

Covalent, Ionic, Hydrogen, Coordinate, hydrophobic and Vander walls interactions in protein structure. Interaction of electromagnetic radiation (radio, micro, infrared, visible, ultraviolet, X-ray) 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

9

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


UNIT III

TERTIARY STRUCTURE

9

Prediction of substrate binding sites, Tertiary structure: Domains, folding, denaturation and renaturation, overview of methods to determine 3D structures. Quaternary structure: Modular nature, formation of complexes, protein-protein interactions and methods to study it.

UNIT IV

STRUCTURE-FUNCTION RELATIONSHIP

9

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, Trans-membrane segments, prediction, bacteriorhodopsin and Photosynthetic reaction center, Immunoglobulins: IgG Light chain and heavy chain architecture and Enzymes: Serine proteases.

UNIT V

PROTEOMICS

9

Introduction to the concept of proteome, components of proteomics, proteomic analysis, importance of proteomics in biological functions, protein arrays, cross linking methods, affinity methods, yeast hybrid systems and protein arrays. It needs Virtual labs and E-learning proteomics tools for the above said syllabus.

TOTAL : 45 PERIODS

OUTCOMES: Upon completion of this course, students will be able:
• To analyze various interactions in protein makeup and be familiar with different levels of protein structure.
• To know the role of functional proteins in various field of study and to practice the latest application of protein science in their research.
• To introduce the concept of proteome, components of proteomics and proteomic analysis.

TEXT BOOKS:
1. Branden C. and Tooze J., “Introduction to Protein Structured” 2nd Edition, Garlan 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”. VivaBooks, 2002

REFERENCES:
1. Liebler, “Introduction to Proteomics” Humana Press, 2002.
2. David Whitford, “Proteins: Structure and Function” John wiley& Sons ltd, 2005.

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