Membrane Proteomics

1. Front Matter

   Pages i-xiii

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2. In Silico Methods for Prediction of Membrane Protein Hydrophobicity and Topology

   1. Front Matter

      Pages 1-1

      PDF

   2. Online Tools for Predicting Integral Membrane Proteins

      • Henry Bigelow, Burkhard Rost

      Pages 3-23

   3. In Silico Identification of Novel G Protein Coupled Receptors

      • Matthew N. Davies, Darren R. Flower

      Pages 25-36

   4. Transcriptome-Based Identification of Candidate Membrane Proteins

      • Edward J. Evans, Lawrence Hene, Mai Vuong, Hussain S.I. Abidi, Simon J. Davis

      Pages 37-56

3. Extraction and Purification of Membrane Proteins

   1. Front Matter

      Pages 57-57

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   2. Plant Membrane Proteins

      1. Separation of Thylakoid Membrane Proteins by Sucrose Gradient Ultracentrifugation or Blue Native-SDS-PAGE Two-Dimensional Electrophoresis

         • Gian Maria D’Amici, Christian G. Huber, Lello Zolla

         Pages 60-70

   3. Prokaryotic Membrane Proteins

      1. Extraction of Yeast Mitochondrial Membrane Proteins by Solubilization and Detergent/Polymer Aqueous Two-Phase Partitioning

         • Henrik Everberg, Niklas Gustavsson, Folke Tjerneld

         Pages 72-81

      2. 16-BAC/SDS-PAGE Analysis of Membrane Proteins of Yeast Mitochondria Purified by Free Flow Electrophoresis

         • Ralf J. Braun, Norbert Kinkl, Hans Zischka, Marius Ueffing

         Pages 83-107

   4. Mammalian Membrane Proteins

      1. Sequential Detergent Extraction Prior to Mass Spectrometry Analysis

         • Fiona M. McCarthy, Amanda M. Cooksey, Shane C. Burgess

         Pages 110-118

      2. Enrichment of Brain Plasma Membranes by Affinity Two-Phase Partitioning

         • Jens Schindler, Hans Gerd Nothwang

         Pages 119-126

      3. Protocol to Enrich and Analyze Plasma Membrane Proteins

         • R. Jacek Wiśniewski

         Pages 127-134

      4. Proteomic Analysis of the Lymphocyte Plasma Membrane Using Cell Surface Biotinylation and Solution-Phase Isoelectric Focusing

         • Matthew J. Peirce, Andrew P. Cope, Robin Wait

         Pages 135-140

      5. Identification of Target Membrane Proteins as Detected by Phage Antibodies

         • Cecile A.W. Geuijen, Arjen Q. Bakker, John de Kruif

         Pages 141-158

      6. Membrane Protease Degradomics: Proteomic Identification and Quantification of Cell Surface Protease Substrates

         • Georgina S. Butler, Richard A. Dean, Derek Smith, Christopher M. Overall

         Pages 159-176

      7. Purification of Basolateral Integral Membrane Proteins by Cationic Colloidal Silica-Based Apical Membrane Subtraction

         • Robert J.A. Goode, Richard J. Simpson

         Pages 177-187

      8. Moving Closer to the Lipid Raft Proteome Using Quantitative Proteomics

         • Leonard J. Foster

         Pages 189-199

      9. Use of Sequential Chemical Extractions to Purify Nuclear Membrane Proteins for Proteomics Identification

         • Nadia Korfali, Elizabeth A.L. Fairley, Selene K. Swanson, Laurence Florens, Eric C. Schirmer

         Pages 201-225

      10. Isolation of Extracellular Membranous Vesicles for Proteomic Analysis

          • Rommel A. Mathias, Justin W. Lim, Hong Ji, Richard J. Simpson

          Pages 227-242

4. Separation of Membrane Proteins

   1. Front Matter

      Pages 243-243

      PDF

The membranes surrounding cells and organelles constitute their interface with the local environment. The functions of membrane proteins include cell/cell and cell/extracellular matrix recognition, the reception and transduction of extracellular signals, and the tra- port of proteins, solutes and water molecules. Abnormal membrane protein expression has profound biological effects and may, for example, underlie phenotypic and functional differences between normal and tumour cells. Moreover the accessibility, particularly of plasma proteins traversing the plasma membrane of cells, makes them of particular ut- ity to the therapeutic intervention in disease. Indeed, it is estimated that of all currently licensed pharmaceuticals, approximately 70% target proteins resident in the plasma m- brane. In theory, unbiased technologies such as proteomics have the power to de?ne patterns of membrane protein expression characteristic of distinct states of cellular development, differentiation or disease, and thereby identify novel markers of, or targets for intervention in, disease. However, although about 25% of open reading frames in fully sequenced genomes are estimated to encode integral membrane proteins, global analysis of membrane protein expression has proved problematic. Membrane protein analysis poses unique challenges at the level of extraction, solubilization, and separation in particular, and to a lesser extent of identi?cation and quantitation. These challenges have, however, fostered creativity, in- vation, and technical advances, many of which are brought together in Membrane P- teomics.

• Hydrophobicity
• In silico
• Lipid
• Mammalian membrane proteins
• Plant membrane proteins
• Plasma and nuclear membrane proteins
• Polyacrylamid-Gelelektrophorese
• Prokaryotic membrane proteins
• Proteomics
• Two-dimensional gel electrophoresis (2DE)
• membrane proteins
• molecular biology
• proteins

From the reviews:

"This is an important resource for investigators interested in understanding patterns of membrane protein expression … which are helpful in the identification of novel markers of, or targets for intervention in, disease. … It will be quite useful for research investigators and students interested in this field. … This book will be a valuable resource for investigators and students interested in learning about membrane proteomic methodologies. … High quality illustrations greatly help the understanding of the material." (Omer Iqbal, Doody’s Review Service, June, 2009)

• Kennedy Institute of Rheumatology Division, Faculty of Medicine Imperial College London, UK

  Matthew J. Peirce, Robin Wait

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