Ligand (biochemistry)

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Myoglobin (blue) with its ligand heme (orange) bound. Based on PDB ID 1MBO
Myoglobin (blue) with its ligand heme (orange) bound. Based on PDB ID 1MBO
For other uses of "Ligand", see Ligand (disambiguation).

In biochemistry, a ligand (latin ligare = to bind) is a substance that is able to bind to and form a complex with a biomolecule to serve a biological purpose. In a narrower sense, it is a signal triggering molecule binding to a site on a target protein, by intermolecular forces such as ionic bonds, hydrogen bonds and Van der Waals forces. The docking (association) is usually reversible (dissociation). Actual irreversible covalent binding between a ligand and its target molecule is rare in biological systems. In contrast to the meaning in metalorganic and inorganic chemistry, it is irrelevant whether the ligand actually binds at a metal site, as it is the case in hemoglobin. Ligand binding to receptors alters the chemical conformation, i.e. the three dimensional shape of the receptor protein. The conformational state of a receptor protein determines the functional state of a receptor. The tendency or strength of binding is called affinity. Ligands include substrates, inhibitors, activators, and neurotransmitters. Radioligands are radioisotope labeled compounds and used in vivo as tracers in PET studies and for in vitro binding studies.

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[edit] Receptor/Ligand binding affinity

The interaction of most ligands with their binding sites can be characterized in terms of a binding affinity. In general, high affinity ligand binding results from greater intermolecular force between the ligand and its receptor while low affinity ligand binding involves less intermolecular force between the ligand and its receptor. In general, high affinity binding involves a longer residence time for the ligand at its receptor binding site than is the case for low affinity binding. High affinity binding of ligands to receptors is often physiologically important when some of the binding energy can be used to cause a conformational change in the receptor, resulting in altered behavior of an associated ion channel or enzyme.

Two agonists with similar binding affinity
Two agonists with similar binding affinity

A ligand that can bind to a receptor, alter the function of the receptor and trigger a physiological response is called an agonist for that receptor. Agonist binding to a receptor can be characterized both in terms of how much physiological response can be triggered and the concentration of the agonist that is required to produce the physiological response. High affinity ligand binding implies that a relatively low concentration of a ligand is adequate to maximally occupy a ligand binding site and trigger a physiological response. Low affinity binding implies that a relatively high concentration of a ligand is required before the binding site is maximally occupied and the maximum physiological response to the ligand is achieved. In the example shown to the right, two different ligands bind to the same receptor binding site. Only one of the agonists shown can maximally stimulate the receptor and thus can be defined as a "full agonist". An agonist that can only partially activate the physiological response is called a "partial agonist". Ligands that bind to a receptor but fail to activate the physiological response are receptor "antagonists". In this example, the concentration at which the full agonist (red curve) can half-maximally activate the receptor is about 5 x 10-9 Molar (nM = nanomolar).

Two ligands with different receptor binding affinity.
Two ligands with different receptor binding affinity.

In the example shown to the left, ligand binding curves are shown for two ligands with different binding affinities. Ligand binding is often characterized in terms of the concentration of ligand at which half of the receptor binding sites are occupied, known as the dissociation constant (kd). The ligand illustrated by the red curve has a higher binding affinity and smaller kd than the ligand illustrated by the green curve. If these two ligands were present at the same time, more of the higher affinity ligand would be bound to the available receptor binding sites. This is how carbon monoxide can compete with oxygen in binding to hemoglobin, resulting in carbon monoxide poisoning.

Binding affinity is most commonly determined using a radiolabeled ligand, known as hot ligand. Homologous competitive binding experiments involve binding-site competition between a hot ligand and a cold ligand (untagged ligand)[1].

For the use of statistical mechanics in a quantitative study of the ligand-receptor binding affinity, see the comprehensive article[2].

[edit] Selective and non-selective

Selective ligands have a tendency to bind to a very limited types of receptors, while non-selective ligands bind to several types of receptors. This plays an important role in pharmacology, where drugs that are non-selective tend to have more adverse effects, because they bind to several other receptors in addition to the one generating the desired effect.

[edit] See also

[edit] References

  1. ^ See Homologous competitive binding curves, A complete guide to nonlinear regression, curvefit.com.
  2. ^ Vu-Quoc, L., Configuration integral (statistical mechanics), 2008.

[edit] Additional references

[edit] External links

  • BindingDB, a public database of measured protein-ligand binding affinities.
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Cell signaling
Key concepts
Processes
Types of proteins
receptor ligands