Protein structure determination. Tertiary protein structure: protein folding Three main approaches: [1] experimental determination (X-ray crystallography,

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Presentation transcript:

Protein structure determination

Tertiary protein structure: protein folding Three main approaches: [1] experimental determination (X-ray crystallography, NMR) [2] Comparative modeling (based on homology) [3] Ab initio (de novo) prediction (Dr. Ingo Ruczinski at JHSPH)

Experimental approaches to protein structure [1] X-ray crystallography -- Used to determine 80% of structures -- Requires high protein concentration -- Requires crystals -- Able to trace amino acid side chains -- Earliest structure solved was myoglobin [2] NMR -- Magnetic field applied to proteins in solution -- Largest structures: 350 amino acids (40 kD) -- Does not require crystallization

Steps in obtaining a protein structure Target selection Obtain, characterize protein Determine, refine, model the structure Deposit in database

X-ray crystallography Sperm Whale Myoglobin

Nuclear magnetic resonance spectroscopy

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