Gel electrophoresis of proteins

Protein electrophoresis is a method for analysing the proteins in a fluid or an extract. The electrophoresis may be performed with a small volume of sample in a number of alternative ways with or without a supporting medium: SDS polyacrylamide gel electrophoresis (in short gel electrophoresis, PAGE, or SDS-electrophoresis, free flow electrophoresis, electrofocusing, isotachophoresis, affinity electrophoresis, immunoelectrophoresis, counterelectrophoresis, and capillary electrophoresis). Each method has many variations with individual advantages and limitations. gel electrophoresis is often performed in combination with electroblotting immunoblotting to give additional information about a specific protein. Because of practical limitations, protein electrophoresis is not suited as a preparative method.

Contents

Denaturing gel methods

SDS-PAGE

SDS-PAGE, sodium dodecyl sulfate polyacrylamide gel electrophoresis, describes a collection of related techniques to separate proteins according to their electrophoretic mobility (a function of the length of a polypeptide chain and its charge) while in the denatured (unfolded) state. In most proteins, the binding of SDS to the polypeptide chain imparts an even distribution of charge per unit mass, thereby resulting in a fractionation by approximate size during electrophoresis.

SDS is a strong detergent agent used to denature native proteins to unfolded, individual polypeptides. When a protein mixture is heated to 100 °C in presence of SDS, the detergent wraps around the polypeptide backbone. In this process, the intrinsic charges of polypeptides becomes negligible when compared to the negative charges contributed by SDS. Thus polypeptides after treatment become rod-like structures possessing a uniform charge density, that is same net negative charge per unit length. The electrophoretic mobilities of these proteins will be a linear function of the logarithms of their molecular weights.

Native gel methods

Native gels, also known as non-denaturing gels, analyze proteins that are still in their folded state. Thus, the electrophoretic mobility depends not only on the charge-to-mass ratio, but also to the physical shape and size of the protein.

Blue Native PAGE

BN-PAGE is a native PAGE technique, where the Coomassie Brilliant Blue dye provides the necessary charges to the protein complexes for the electrophoretic separation.[1][2] The disadvantage of Coomassie is that in binding to proteins it can act like a detergent causing complexes to dissociate. Another drawback is the potential quenching of chemoluminescence (e.g. in subsequent western blot detection or activity assays) or fluorescence of proteins with prosthetic groups (e.g. heme or chlorophyll) or labelled with fluorescent dyes.

Clear Native PAGE

CN-PAGE (commonly referred to as Native PAGE) separates acidic water-soluble and membrane proteins in a polyacrylamide gradient gel. It uses no charged dye so the electrophoretic mobility of proteins in CN-PAGE (in contrast to the charge shift technique BN-PAGE) depends only on the intrinsic charge of the proteins.[3] The migration distance depends on the protein intrinsic charge, and on the pore size of the gradient gel. In many cases this method has lower resolution than BN-PAGE, but CN-PAGE offers advantages whenever Coomassie dye would interfere with further analytical techniques, for example it has been described as a very efficient microscale separation technique for FRET analyses.[4] Also CN-PAGE is milder than BN-PAGE so it can retain labile supramolecular assemblies of membrane protein complexes that dissociated under the conditions of BN-PAGE.

Quantitative Preparative Native Continuous PAGE

In contrast to CN- and BN-PAGE the protein complexes of interest may separate cleanly and predictably in fractions, since they move through the polyacrylamide gel as quickly as individual, denatured proteins due to pH 10.00 of the electrophoresis buffer. The separated proteins are continuously eluted into a physiological eluent (pH 8.00) and transported to a fraction collector. In specific PAGE fractions the metal cofactors can be identified and quantified. The structure of isolated metalloproteins can be elucidated by non-denaturing methods[5].

Protein electrophoresis in medicine

In medicine, protein electrophoresis is a method of analysing the proteins mainly in blood serum (blood plasma is not suitable). Before the widespread use of gel electrophoresis, protein electrophoresis was performed as free flow electrophoresis, on paper, or as immunoelectrophoresis.

Traditionally, two classes of blood proteins are considered: serum albumin and globulin. They are generally equal in proportion, but albumin as a molecule is much smaller and lightly negatively charged, leading to an accumulation of albumin on the electrophoretic gel. A small band before albumin represents transthyretin (also named prealbumin). Some forms of medication or body chemicals can cause their own band, usually small. Abnormal bands (spikes) are seen in monoclonal gammopathy of undetermined significance and multiple myeloma, and are useful in the diagnosis of these conditions.

The globulins are classified by their banding pattern (with their main representatives):

Normal present medical procedure involves determination of numerous proteins in plasma including hormones and enzymes, some of them also determined by electrophoresis. However, gel electrophoresis is mainly a research tool, also when the subject is blood proteins.

See also

References

  1. ^ Schägger, H.; Jagow, G. (1991). "Blue native electrophoresis for isolation of membrane protein complexes in enzymatically active form". Anal. Biochem. 199 (2): 223–231. doi:10.1016/0003-2697(91)90094-A. PMID 1812789 
  2. ^ Wittig, I.; Braun, H.P.; Schägger, H. (2006). "Blue native PAGE". Nat. Protoc. 1 (1): 418–428. doi:10.1038/nprot.2006.62. PMID 17406264 
  3. ^ Wittig, I.; Schägger, H. (Nov 2005). "Advantages and limitations of clear-native PAGE". Proteomics 5 (17): 4338–46. doi:10.1002/pmic.200500081. PMID 16220535. http://www3.interscience.wiley.com/journal/112101783/abstract. 
  4. ^ Gavin P.D., Devenish R.J., Prescott M. FRET reveals changes in the F1–stator stalk interaction during activity of F1F0-ATP synthase. Biochim Biophys Acta. 2003 Dec 8;1607(2-3):167-79.
  5. ^ Kastenholz, B. (2006). "Important contributions of a new quantitative preparative native continuous polyacrylamide gel electrophoresis (QPNC-PAGE) procedure for elucidating metal cofactor metabolisms in protein-misfolding diseases – a theory". Protein Pept Lett 13 (5): 503–8. doi:10.2174/092986606776819637. PMID 16800806. http://www.ingentaconnect.com/content/ben/ppl/2006/00000013/00000005/art00015. 

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