- NMR spectroscopy
Nuclear magnetic resonance spectroscopy, most commonly known as NMR spectroscopy, is the name given to a technique which exploits the magnetic properties of certain nuclei. This phenomenon and its origins are detailed in a separate section on
nuclear magnetic resonance. The most important applications for the organic chemist are proton NMRand carbon-13 NMRspectroscopy. In principle, NMR is applicable to any nucleus possessing spin.
Many types of information can be obtained from an NMR spectrum. Much like using
infrared spectroscopyto identify functional groups, analysis of a 1D NMR spectrum provides information on the number and type of chemical entities in a molecule. However, NMR provides much more information than IR.
The impact of NMR spectroscopy on the natural sciences has been substantial. It can, among other things, be used to study mixtures of analytes, to understand dynamic effects such as change in temperature and reaction mechanisms, and is an invaluable tool in understanding protein and nucleic acid structure and function. It can be applied to a wide variety of samples, both in the solution and the solid state.
Basic NMR techniques
When placed in a magnetic field, NMR active nuclei (such as 1H or 13C) absorb at a frequency characteristic of the
isotope. The resonant frequency, energy of the absorption and the intensity of the signal are proportional to the strength of the magnetic field. For example, in a 21 tesla magnetic field, protons resonate at 900 MHz. It is common to refer to a 21 T magnet as a 900 MHz magnet, although different nuclei resonate at a different frequency at this field strength.
In the Earth's magnetic field the same nuclei resonate at audio frequencies. This effect is used in
Earth's field NMRspectrometers and other instruments. Because these instruments are portable and inexpensive, they are often used for teaching and field work.
Depending on the local chemical environment, different protons in a molecule resonate at slightly different frequencies. Since both this frequency shift and the fundamental resonant frequency are directly proportional to the strength of the magnetic field, the shift is converted into a "field-independent" dimensionless value known as the
chemical shift. The chemical shift is reported as a relative measure from some reference resonance frequency. (For the nuclei 1H, 13C, and 29Si, TMS ( tetramethylsilane) is commonly used as a reference.) This difference between the frequency of the signal and the frequency of the reference is divided by frequency of the reference signal to give the chemical shift. The frequency shifts are extremely small in comparison to the fundamental NMR frequency. A typical frequency shift might be 100 Hz, compared to a fundamental NMR frequency of 100 MHz, so the chemical shift is generally expressed in parts per million (ppm).cite web | publisher = University of California, Irvine| work = Understanding NMR Spectroscopy | author = James Keeler | format = reprinted at University of Cambridge| url = http://www-keeler.ch.cam.ac.uk/lectures/Irvine/chapter2.pdf | title = Chapter 2: NMR and energy levels | accessdate = 2007-05-11]
By understanding different chemical environments, the chemical shift can be used to obtain some structural information about the molecule in a sample. The conversion of the raw data to this information is called "assigning" the spectrum. For example, for the 1H-NMR spectrum for ethanol (CH3CH2OH), one would expect three specific signals at three specific chemical shifts: one for the C"H"3 group, one for the C"H"2 group and one for the O"H" group. A typical CH3 group has a shift around 1 ppm, a CH2 attached to an OH has a shift of around 4 ppm and an OH has a shift around 2–3 ppm depending on the solvent used.
Because of molecular motion at room temperature, the three methyl protons "average" out during the course of the NMR experiment (which typically requires a few ms). These protons become degenerate and form a peak at the same chemical shift.
The shape and size of peaks are indicators of chemical structure too. In the example above—the proton spectrum of ethanol—the CH3 peak would be three times as large as the OH. Similarly the CH2 peak would be twice the size of the OH peak but only 2/3 the size of the CH3 peak.
Modern analysis software allows analysis of the size of peaks to understand how many protons give rise to the peak. This is known as integration—a mathematical process which calculates the area under a graph (essentially what a spectrum is). The analyst must integrate the peak and not measure its height because the peaks also have "width"—and thus its size is dependent on its area not its height. However, it should be mentioned that the number of protons, or any other observed nucleus, is only proportional to the intensity, or the integral, of the NMR signal, in the very simplest one-dimensional NMR experiments. In more elaborate experiments, for instance, experiments typically used to obtain
carbon-13NMR spectra, the integral of the signals depends on the relaxation rate of the nucleus, and its scalar and dipolar coupling constants. Very often these factors are poorly understood - therefore, the integral of the NMR signal is very difficult to interpret in more complicated NMR experiments.
Some of the most useful information for structure determination in a one-dimensional NMR spectrum comes from J-coupling or scalar coupling (a special case of
spin-spin coupling) between NMR active nuclei. This coupling arises from the interaction of different spin states through the chemical bonds of a molecule and results in the splitting of NMR signals. These splitting patterns can be complex or simple and, likewise, can be straightforwardly interpretable or deceptive. This coupling provides detailed insight into the connectivity of atoms in a molecule.
Coupling to "n" equivalent (spin ½) nuclei splits the signal into a "n"+1 multiplet with intensity ratios following
Pascal's triangleas described on the right. Coupling to additional spins will lead to further splittings of each component of the multiplet e.g. coupling to two different spin ½ nuclei with significantly different coupling constants will lead to a "doublet of doublets" (abbreviation: dd). Note that coupling between nuclei that are chemically equivalent (that is, have the same chemical shift) has no effect of the NMR spectra and couplings between nuclei that are distant (usually more than 3 bonds apart for protons in flexible molecules) are usually too small to cause observable splittings. "Long-range" couplings over more than three bonds can often be observed in cyclic and aromaticcompounds, leading to more complex splitting patterns.
For example, in the proton spectrum for ethanol described above, the CH3 group is split into a "triplet" with an intensity ratio of 1:2:1 by the two neighboring CH2 protons. Similarly, the CH2 is split into a "quartet" with an intensity ratio of 1:3:3:1 by the three neighboring CH3 protons. In principle, the two CH2 protons would also be split again into a "doublet" to form a "doublet of quartets" by the hydroxyl proton, but intermolecular exchange of the acidic hydroxyl proton often results in a loss of coupling information.
Coupling to any spin ½ nuclei such as phosphorus-31 or fluorine-19 works in this fashion (although the magnitudes of the coupling constants may be very different). But the splitting patterns differ from those described above for nuclei with spin greater than ½ because the
spin quantum numberhas more than two possible values. For instance, coupling to deuterium (a spin 1 nucleus) splits the signal into a "1:1:1 triplet" because the spin 1 has three spin states. Similarly, a spin 3/2 nucleus splits a signal into a "1:1:1:1 quartet" and so on.
Coupling combined with the chemical shift (and the integration for protons) tells us not only about the chemical environment of the nuclei, but also the number of "neighboring" NMR active nuclei within the molecule. In more complex spectra with multiple peaks at similar chemical shifts or in spectra of nuclei other than hydrogen, coupling is often the only way to distinguish different nuclei.
econd-order (or strong) coupling
The above description assumes that the coupling constant is small in comparison with the difference in NMR frequencies between the inequivalent spins. If the shift separation decreases (or the coupling strength increases), the multiplet intensity patterns are first distorted, and then become more complex and less easily analyzed (especially if more than two spins are involved). Intensification of some peaks in a multiplet is achieved at the expense of the remainder, which sometimes almost disappear in the background noise, although the integrated area under the peaks remains constant.In most high-field NMR, however, the distortions are usually modest and the characteristic distortions ("roofing") can in fact help to identify related peaks.
Second-order effects decrease as the frequency difference between multiplets increases, so that high-field (i.e. high-frequency) NMR spectra display less distortion than lower frequency spectra. Early spectra at 60 MHz were more prone to distortion than spectra from later machines typically operating at frequencies at 200 MHz or above.
More subtle effects can occur if chemically equivalent spins (i.e. nuclei related by symmetry and so having the same NMR frequency) have different coupling relationships to external spins. Spins that are chemically equivalent but are not indistinguishable (based on their coupling relationships) are termed magnetically inequivalent. For example, the 4 H sites of 1,2-dichlorobenzene divide into two chemically equivalent pairs by symmetry, but an individual member of one of the pairs has different couplings to the spins making up the other pair.Magnetic inequivalence can lead to highly complex spectra which can only be analyzed by computational modeling. Such effects are more common in NMR spectra of aromatic and other non-flexible systems, while conformational averaging about C-C bonds in flexible molecules tends to equalize the couplings between protons on adjacent carbons, reducing problems with magnetic inequivalence.
Correlation spectroscopy is one of several types of two-dimensional nuclear magnetic resonance (NMR) spectroscopy. This type of NMR experiment is best known by its
acronym, COSY. Other types of two-dimensional NMR include J-spectroscopy, exchange spectroscopy (EXSY), Nuclear Overhauser effectspectroscopy (NOESY), total correlation spectroscopy ( TOCSY) and heteronuclear correlation experiments, such as HSQC, HMQC, and HMBC. Two-dimensional NMR spectra provide more information about a molecule than one-dimensional NMR spectra and are especially useful in determining the structure of a molecule, particularly for molecules that are too complicated to work with using one-dimensional NMR. The first two-dimensional experiment, COSY, was proposed by Jean Jeener, a professor at Université Libre de Bruxelles, in 1971. This experiment was later implemented by Walter P. Aue, Enrico Bartholdi and Richard R. Ernst, who published their work in 1976. [Martin, G.E; Zekter, A.S., "Two-Dimensional NMR Methods for Establishing Molecular Connectivity"; VCH Publishers, Inc: New York, 1988 (p.59)]
olid-state nuclear magnetic resonance
A variety of physical circumstances does not allow molecules to be studied in solution, and at the same time not by other spectroscopic techniques to an atomic level, either. In solid-phase media, such as crystals, microcrystalline powders, gels, anisotropic solutions, etc., it is in particular the dipolar coupling and chemical shift anisotropy that become dominant to the behaviour of the nuclear spin systems. In conventional solution-state NMR spectroscopy, these additional interactions would lead to a significant broadening of spectral lines. A variety of techniques allows to establish high-resolution conditions, that can, at least for 13C spectra, be comparable to solution-state NMR spectra.
Two important concepts for high-resolution solid-state NMR spectroscopy are the limitation of possible molecular orientation by sample orientation, and the reduction of anisotropic nuclear magnetic interactions by sample spinning. Of the latter approach, fast spinning around the
magic angleis a very prominent method, when the system comprises spin 1/2 nuclei. A number of intermediate techniques, with samples of partial alignment or reduced mobility, is currently being used in NMR spectroscopy.
Applications in which solid-state NMR effects occur are often related to structure investigations on membrane proteins, protein fibrils or all kinds of polymers, and chemical analysis in inorganic chemistry, but also include "exotic" applications like the plant leaves and fuel cells.
NMR spectroscopy applied to proteins
Much of the recent innovation within NMR spectroscopy has been within the field of
proteinNMR, which has become a very important technique in structural biology. One common goal of these investigations is to obtain high resolution 3-dimensional structures of the protein, similar to what can be achieved by X-ray crystallography. In contrast to X-ray crystallography, NMR is primarily limited to relatively small proteins, usually smaller than 35 kDa, though technical advances allow ever larger structures to be solved. NMR spectroscopy is often the only way to obtain high resolution information on partially or wholly intrinsically unstructured proteins.
Proteins are orders of magnitude larger than the small organic molecules discussed earlier in this article, but the same NMR theory applies. Because of the increased number of each element present in the molecule, the basic 1D spectra become crowded with overlapping signals to an extent where analysis is impossible. Therefore, multidimensional (2, 3 or 4D) experiments have been devised to deal with this problem. To facilitate these experiments, it is desirable to isotopically label the protein with 13C and 15N because the predominant naturally occurring isotope 12C is not NMR-active, whereas the nuclear quadrupole moment of the predominant naturally occurring 14N isotope prevents high resolution information to be obtained from this nitrogen isotope. The most important method used for structure determination of proteins utilizes NOE experiments to measure distances between pairs of atoms within the molecule. Subsequently, the obtained distances are used to generate a 3D structure of the molecule using a computer program.
NMR tube- includes sample preparation
Magnetic Resonance Imaging
In vivo magnetic resonance spectroscopy
Low field NMR
Earth's field NMR
*cite web | publisher =
University of California, Irvine| title = Understanding NMR Spectroscopy | author = James Keeler | format = reprinted at University of Cambridge| url = http://www-keeler.ch.cam.ac.uk/lectures/Irvine/ | accessdate = 2007-05-11
* [http://www.cis.rit.edu/htbooks/nmr/ The Basics of NMR] - A very detailed and technical overview of NMR theory, equipment, and techniques by Dr. Joseph Hornak, Professor of Chemistry at RIT
* [http://nmrwiki.org NMRWiki.ORG] project, a
Wikidedicated to NMR, MRI, and EPR.
* [http://www.organicworldwide.net/nmr.html NMR spectroscopy for organic chemistry]
;Free NMR processing, analysis and simulation software
* [http://www.chem.wisc.edu/areas/reich/plt/windnmr.htm WINDNMR-Pro] - simulation software for interactive calculation of first and second-order spin-coupled multiplets and a variety of
* [http://www.nmr.ch CARA] - resonance assignment software developed at the Wüthrich group
* [http://www.nmrshiftdb.org NMRShiftDB] - open database and NMR prediction website
* [http://www.umanitoba.ca/chemistry/nmr/spinworks/ Spinworks]
;Commercial NMR processing, analysis and simulation software
* [http://www.acdlabs.com/ ACD/Labs] - commercial processing software for [http://www.acdlabs.com/products/spec_lab/exp_spectra/nmr/ 1D] and [http://www.acdlabs.com/products/spec_lab/exp_spectra/2d_nmr/ 2D] NMR spectra plus modules to [http://www.acdlabs.com/products/spec_lab/predict_nmr/ predict] NMR spectra. DB interface available.
* [http://www.knowitall.com/ Bio-Rad ] - commercial software (KnowItAll Informatics System) for processing NMR sepctra as well as tools for database creation, database searching, NMR spectrum prediction, and chemometrics (including metabolomics)
* [http://www.bruker-biospin.com/topspin.html TopSpin] - commercial processing software for 1D-5D NMR spectra, advanced analysis functions for small and large molecules
* [http://www.mestrec.com/ MestReC] - commercial software for the processing, analysis and simulation of 1D and 2D NMR spectra
* [http://www.mestrec.com/index.php?idp=1&i18n=1/ MestRe Nova] - commercial software for the processing and analysis of 1D and 2D NMR spectra, as well as for [http://www.mestrec.com/index.php?idp=3&i18n=1/ prediction] of 1H and 13C NMR
* [http://www.mestrec.com/index.php?idp=2&i18n=1/ Mspin] - alpha version of commercial software for the computation of NMR properties such as 3J, NOE and RDC from molecular structure
* [http://www.acornnmr.com/nuts.htm Nuts] , commercial software for work-up of 1D and 2D NMR spectra
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