ELECTROPHORESIS FOOD ANALYSIS AND BIOCHEMISTRY- PRACTICE ENDRIKA WIDYASTUTI MOCH. NURCHOLIS FOOD AND SCIENCE TECHNOLOGY UNIVERSITY OF BRAWIJAYA 2012

ELECTROPHORESIS FOOD ANALYSIS AND BIOCHEMISTRY- PRACTICE ENDRIKA WIDYASTUTI MOCH. NURCHOLIS FOOD AND SCIENCE TECHNOLOGY UNIVERSITY OF BRAWIJAYA 2012

Separation into bands due to friction through the gel and charge on protein. Magnitude of charge and voltage will also determine how far the protein will travel in the electrical field. Smaller proteins tend to move faster Electrophoresis

Why Electrophoresis??? Quantiative analysis and fractination of biological fluids Characterization of purified components Detection and characterization of macromolecular interactions

Type of Electrophoresis Moving boundary electrophoresis Zone electrophoresis SDS Disk Electrophoresis Paper electrophoresis SDS-PAGE

Electrophoresis- SDS Page Separation based on size. Protein berikatan dengan SDS to become negatively charged. SDS = sodium dodecyl sulfate => anionic detergent (negative charge) Proteins move through gel matrix to the anode (electrical pole with a positive charge). The RATE they move is based on size. Good for determining protein composition, purity, and estimation of molecular weight.

ELEKTROFORESIS SDS-PAGE Prinsip Analisis : Suatu metode untuk memisahkan makromolekul seperti asam nukleat dan protein berdasarkan ukuran, muatan listrik dan ciri fisik. Tujuan : Mengetahui prinsip dasar pemisahan protein dengan metode elektroforesis Menentukan berat molekul kasein

ELEKTROFORESIS SDS-PAGE Protein mempunyai muatan positif dan negatif Muatan listrik menyebabkan protein bergerak ke elektroda melewati gel poliakrilamid Gel memisahkan molekul berdasarkan : 1. Ukuran 2. Bentuk molekul 3. Kekuatan medan listrik 4. Sifat hidrofobik relatif sampel 5. Kekuatan ionik. Poliakrilamid memisahkan Protein MW 0,5-250 kda memisahkan DNA 5-2000 bp

Isoelectric Point (pi) Setiap protein memiliki (pi), kondisi dimana protein tidak bermuatan sehingga tidak terjadi perpindahan. ph dimana protein tidak bermuatan Protein dikatakan basa, asam atau netral tergantung pada muatan protein pada ph fisiologis Nilai ph dibawah pi protein berpindah sebagai kation(-) mobility increasing with decreasing ph Nilai ph diatas pi protein berpindah sebagai anion(+), mobility increasing with increasing ph

Media for Electrophoresis Paper strip Cellulose acetate Agar Starch Polyacrylamide gels (PAGE) molecular sieving is utilized to great advantage. PAGE Size, shape and electrophoretic mobility, Improved resolution

MARKER LMW (Low Molecular Weight) 14,4-97kDa HMW-SDS (High Molecular Weight) 53-220 kda HMW-Native 66-669 kda Peptide marker kit (Horse myoglobin peptides) Mr = 2,5-17 kda

LMW Marker Protein Mr (kda) Source Amount (µg) Phosphorylase b 97 Rabbit muscle 67 Albumin 66 Bovine serum 83 Ovalbumin 45 Chicken egg white 147 Carbonic anhydrase 30 Bovine erythocyte 83 Trypsin inhibitor 20,1 Soybean 80 α-lactalbumin 14,4 Bovine Milk 116

HMW-SDS Marker Protein Mr (kda) Source Amount (µg) Myosin 220 Rabbit muscle 25 α-2-macroglobulin 170 Bovine plasma 100 β-galactosidase 116 Escherchia coli 16 Transferrin 76 Human 17 Glutamate dehydrogenase 53 Bovine liver 18

HMW-Native Marker Protein Mr (kda) Source Amount (µg) Thyroglobulin 669 Porcine thyroide 76 Ferritin 440 Equine spleen 50 Catalase 232 Bovine liver 36 Lactate dehydrogenase 140 Bovine heart 48 Albumin 66 Bovine serum 40

Bahan-Bahan Sampel Kasein Buffer Bufer Tris-Cl 0,5 M ph 6,8 ; SDS 2% ; Merkaptoetanol 0,05% Larutan stock Akrilamid 30% 29.2 gram akrilamid ditambah 0.8 gram N N -bis-methylene acrylamid dalam 100 ml aquades.

Bahan-Bahan Larutan SDS 10 % Amonium persulfat (APS) 10% (di buat setiap akan digunakan) TEMED Larutan Pewarna (Staining) 0.1 % commasie blue dalam larutan metanol : air : asam asetat (5:5:2) Larutan Pembilas (destaining) metanol : air : asam asetat (5:5:2) Aquades

Alat Seperangkat alat elektroforesis Mikropipet Tip Beker glass 100 ml Beker glas 50 ml Eppendorf Shaker

Seperangkat Alat Elektroforesis

Prosedur Kerja Pembuatan gel : Pasanglah alat gelas untuk mencetak gel ke tempat yang disediakan (seperti gambar 4.) Untuk membuat 20 ml gel 20% campurkan 13.3 ml larutan stok akrilamid 30%, 5 ml buffer Tris-HCl 0.5 M, ph 6.8, 0.2 ml SDS 10%, 1.5 ml aquades. Tambahkan segera 100 µl APS 10% dan TEMED 10 µl Aduk hingga tercampur merata Tuangkan ke dalam cetakan gel dengan menggunakan mikropipet hingga tinggi yang dikehendaki. Beri sisa tempat untuk stacking gel di bawah area peletakan gigi sisir. Biarkan gel terpolimerisasi selama 15-30 menit dalam suhu ruang.

Polyacrylamide Gel Cathode Anode Proteins separated by molecular weight

Prosedur Kerja Tuangkan aquades dengan mikropipet ke permukaan gel pemisah dan kemudian buang aquades tersebut dengan menyerapkan tisu Sementara itu buat lagi gel untuk membuat 4 ml stacking gel 4% dengan mencampur 1.2 ml larutan stok akrilamid 30%, 0.5 ml buffer Tris-HCl 6.8, 40 µl SDS 20%, 2.26 ml aquades. Tambahkan segera 20 µl 10% APS dan 5 µl TEMED. Tuangkan larutan ke atas gel pemisah Sisipkan gigi sisir pada stacking gel dengan perlahan, jangan sampai terbentuk gelembung. Biarkan gel terpolimerisasi selama 15-30 menit dalam suhu ruang Ambillah sisir secara perlahan dari gel. Pindahkan gel secara perlahan ke dalam tank elektroforesis (seperti gambar 5.) Masukkan buffer tank ke dalam tank elektroforesis

Persiapan sampel Prosedur Kerja Larutkan 0.1 gram kasein ke dalam 4.9 gram sampel buffer Panaskan pada suhu 90 o C selama 5 menit. Pemisahan protein dengan elektroforesis Masukkan sampel ke dalam sumuran sebanyak 5 µl Pasanglah elektrode sesuai dengan warnanya. Gel dijalankan pada tegangan 200 V selama 45 menit atau hingga sampel telah mencapai bagian dasar.

Pemisahan Molekul Berdasarkan Berat Molekul dan Muatan

Proses Elektroforesis

Pewarnaan Gel Hentikan listrik, pindahkan gel dari tank Pindahkan glass plate dari gel kedua sisi Tuangkan larutan pewarna pada gel dalam wadah Tutup dengan plastik dan letakkan di atas shaker selama 15-30 menit Pindahkan larutan pewarna dari gel. Simpan untuk digunakan kembali. Bilas gel dengan aquades Tuangkan larutan pembilas selama dan masukkan potongan kertas saring, biarkan selama 10-15 menit di atas shaker Ganti larutan pembilas dengan yang baru hingga yang terlihat pada gel adalah pita-pita protein.

Pengamatan Amati pita-pita yang terbentuk pada gel elektroforesis. Cari dalam literatur berat molekul masing-masing komponen penyusun kasein dan tentukan letak komponen tersebut pada pita gel elektroforesis.

Hasil SDS-PAGE 1 2 3 4 5 6 7 8 9 M

Protein gel (SDS-PAGE) that has been stained with Coomassie Blue.

MATERI TAMBAHAN

SDS-PAGE (PolyAcrylamide Gel Electrophoresis) SDS-PAGE, sodium dodecyl sulfate polyacrylamide gel electrophoresis, is a technique widely used in biochemistry, forensics, genetics and molecular biology: to separate proteins according to their electrophoretic mobility (a function of length of polypeptide chain or molecular weight). to separate proteins according to their size, and no other physical feature.

Fig.1Before SDS: Protein (pink line) incubated with the denaturing detergent SDS showing negative and positive charges due to the charged R-groups in the protein. The large H's represent hydrophobic domains where nonpolar R-groups have collected in an attempt to get away from the polar water that surrounds the protein. After SDS: SDS disrupt hydrophobic areas (H's) and coat proteins with many negative charges which overwhelms any positive charges the protein had due to positively charged R-groups. The resulting protein has been denatured by SDS (reduced to its primary structure-aminoacid sequence) and as a result has been linearized.

..SDS SDS (the detergent soap) breaks up hydrophobic areas and coats proteins with negative charges thus overwhelming positive charges in the protein. The detergent binds to hydrophobic regions in a constant ratio of about 1.4 g of SDS per gram of protein.

..SDS Therefore, if a cell is incubated with SDS, the membranes will be dissolved, all the proteins will be solubalized by the detergent and all the proteins will be covered with many negative charges.

PAGE If the proteins are denatured and put into an electric field (only), they will all move towards the positive pole at the same rate, with no separation by size. However, if the proteins are put into an environment that will allow different sized proteins to move at different rates. The environment is polyacrylamide. the entire process is called polyacrylamide gel electrophoresis (PAGE).

..PAGE Small molecules move through the polyacrylamide forest faster than big molecules. Big molecules stays near the well.

The actual bands are equal in size, but the proteins within each band are of different sizes.

Sample of SDS- PAGE