Protein–Ligand Interactions: Induced Fit

Buyong Ma, Frederick Cancer Research and Development Center National Cancer Institute, Frederick, Maryland, USA
Sandeep Kumar, Frederick Cancer Research and Development Center National Cancer Institute, Frederick, Maryland, USA
Chung‐Jung Tsai, Frederick Cancer Research and Development Center National Cancer Institute, Frederick, Maryland, USA
Haim Wolfson, Tel Aviv University, Tel Aviv, Israel
Neeti Sinha, Frederick Cancer Research and Development Center National Cancer Institute, Frederick, Maryland, USA
Ruth Nussinov, Tel Aviv University, Tel Aviv, Maryland, Israel

Published online: May 2001

DOI: 10.1038/npg.els.0003140

Protein–ligand interactions include two major components: protein folding and binding mechanisms; and hinge bending conformational transitions.

Keywords: hydrophobic effect; hydrogen bond; shape complementarity; molecular recognition; receptor–ligand interactions

Figure 1. Schematic illustration of the landscapes of protein–ligand interactions. The energy landscape of the protein–ligand complex is a fusion between two individual funnel-like landscapes, corresponding to the protein and the ligand. In real protein–ligand associations, the energy landscapes for the protein, ligand and the protein–ligand complex will be much more rugged, depending upon the flexibility of the protein, the ligand and the protein–ligand complex.
Figure 2. Ribbon diagram showing domain motion in adenylate kinase. Unbound adenylate kinase is shown in green. Adenylate kinase bound with the inhibitor Ap5A is shown in red.
Figure 3. Ribbon diagram showing subunit motion in aspartate receptor. Only the ligand (aspartate) binding domains are shown. Unbound aspartate receptor is shown in green. Aspartate-bound aspartate receptor is shown in red. The orientation of the subunits in aspartate receptor changes upon aspartate binding.
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Related Sub-Topics:

Protein Structure | Biomolecular Interactions | Proteins: Structure, Function, Metabolism | Enzymes: Structure and Action Mechanism
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Article Title: Protein–Ligand Interactions: Induced Fit
 
How to Cite close
Ma, Buyong, Kumar, Sandeep, Tsai, Chung‐Jung, Wolfson, Haim, Sinha, Neeti, and Nussinov, Ruth(May 2001) Protein–Ligand Interactions: Induced Fit. In: eLS. John Wiley & Sons Ltd, Chichester. http://www.els.net [doi: 10.1038/npg.els.0003140]