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Deae sepharose

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DEAE-sepharose is a chromatography medium used for the separation and purification of biomolecules. It consists of diethylaminoethyl (DEAE) functional groups attached to a cross-linked agarose matrix. DEAE-sepharose is commonly used for the purification of proteins, nucleic acids, and other biomolecules based on their ionic interactions with the positively charged DEAE groups.

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6 protocols using deae sepharose

1

Cloning and Purification of HiGulD and HiUxuA

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The genes HiGulD (Uniprot ID Q57517) and HiUxuA (Uniprot ID P44488) were amplified from H. influenzae strain Rd KW20 (ATCC 51907) genomic DNA. PCR was performed using KOD Extreme DNA Polymerase (Novagen) according to the manufacturer’s guidelines. The conditions were: 2 min at 95°C, followed by 40 cycles of 20 s at 95°C, 20 s at 66°C, and 20 s at 72°C. Primers are listed in Supplementary file 7. The amplified fragment was cloned into the C-terminal TEV cleavable 10x-Histag containing vector pNYCOMPS-LIC-TH10-ccdB (C-term) such that the tag is out of frame (pNYCOMPSC-tagless), by ligation-independent cloning (Aslanidis and de Jong, 1990 (link); Savitsky et al., 2010 (link)).
The pNYCOMPSC-tagless HiGulD and HiUxuA constructs were transformed into E. coli BL21 (DE3) for expression. Both HiGulD and HiUxuA were purified from 1 L of culture using DEAE Sepharose, Q‐Sepharose, and phenyl-Sepharose columns (all Amersham Biosciences) as previously described (Wichelecki et al., 2014 (link)). Proteins were concentrated to 15 g/L and 6 g/L, respectively, flash frozen in liquid nitrogen, and stored at −80°C.
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2

Far-Western Dot Blot Assay for ESAT-6 Interaction

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For Far-Western Dot Blot assay, ESAT-6-FLAG was purified by ion-exchange chromatography. Briefly, E. coli BL21 (DE3) cells harboring flagesat6pET28a were subjected to IPTG induction and cells were harvested, lysed in denaturing condition. Clear supernatant was allowed to bind on DEAE-sepharose (Amersham) followed by washing with lysis buffer and the resin bound proteins were eluted using a gradient of NaCl from 0 M to 1 M, prepared in lysis buffer. Purified protein was refolded by sequential dialysis against PBS with decreasing concentration of urea. The interaction between ESAT-6-FLAG and HCL2-His6X (commercially synthesized from GenScript, Hong Kong) was determined using a protocol reported previously [16 (link)]. An unrelated protein ED3-His6X (sequence given in Additional file 1: Figure S1) was used as a negative control. CFP10-His6X and ESAT-6-FLAG were used as positive controls.
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3

Enzymatic Assay for Cysteine Sulfoxide Synthesis

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Reduced
form of nicotinamide adenine dinucleotide
(NADH), lactate dehydrogenase (LDH) from rabbit muscle, and (±)-L-alliin
were purchased from Sigma-Aldrich; pyridoxal 5′-phosphate (PLP)
and d,l-dithiothreitol (DTT) were from Serva; kanamycin
is a domestic product (OAO Biokhimik); DEAE-sepharose was from Amersham.
2-Nitro-5-thiobenzoate (NTB) was prepared according to ref (31 (link)). S-Methyl-l-cysteine sulfoxide (methiin) was synthesized according to
Morozova et al.22 (link) PEG–poly(α,β-aspartic
acid)70 (PEG–P(Asp)70) and poly-(l-lysine)70 (PLL70) were synthesized according
to Koide et al.32 (link) Luria–Bertani
broth (LB), Mueller–Hinton broth, Mueller–Hinton agar,
and antibiotic-impregnated discs: amikacin, amoxycillin/clavulanic
acid, ampicillin, azithromycin, aztreonam, cefepime, ceftazidime,
ceftriaxone, cephotaxime, cephoxitin, chloramphenicol, ciprofloxacin,
colistin, doxycycline, erythromycin, gentamicin, imipenem, levofloxacin,
lincomycin, norfloxacin, ofloxacin, oxacillin, rifampicin, spiramycin,
tobramycin, and vancomycin were from HiMedia Laboratories Pvt. Limited
(India).
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4

Recombinant Expression and Purification of Truncated Human ACE2

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DNA encoding the truncated human ACE2 ectodomain (residues 19–613) with a C-terminal AVI-tag and 6xHis-tag was synthesized (IDT) and subcloned into a pHLSec expression plasmid. Plasmid DNA was used for transient expression in Expi293F cells using ExpiFectamine 293 Transfection Kits (Thermo Fisher Scientific). Expression supernatant was harvested at day 6 and dialyzed into 10 mM Tris pH 8.0. ACE2 was subsequently purified using weak anion exchange (DEAE Sepharose, Cytiva), followed by size-exclusion chromatography (Superdex 200, Cytiva). Protein was then biotinylated enzymatically using BirA enzyme and further purified using strong anion exchange (MonoQ, Cytiva).
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5

Expression and Purification of hSTOM(SPFH) Mutants

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The preparation of hSTOM(SPFH) and its alanine-substituted mutants were performed as described previously (Tsuruta et al., 2012 (link)). The plasmid vectors carrying the R125A and K188A mutants of GST-tagged hSTOM(SPFH) were prepared according to a standard PCR mutagenesis method using the QuikChange™ site-directed mutagenesis kit (Stratagene, La Jolla, CA, USA). Briefly, the GST-tagged hSTOM(SPFH) (wild type and the mutants) was expressed in Escherichia coli BL21 (DE3) grown in M9 minimal medium containing [15N]-NH4Cl or LB medium under isopropyl-β-D-1-thiogalactopyranoside (IPTG) induction. The supernatant of the sonicated cells was purified using DEAE Sepharose (Cytiva, Marlborough, MA, USA) and Glutathione Sepharose 4 Fast Flow (Cytiva). After the cleavage of the GST-tag using thrombin (Wako) at 25 ​°C, the protein was further purified using size exclusion chromatography with a Superdex 75 HR 26/60 column (Cytiva) equilibrated with 50 ​mM Tris/HCl buffer (pH 7.5) containing 150 ​mM NaCl. The purified proteins were concentrated and dialyzed with 50 ​mM sodium phosphate buffer (pH 6.0) containing 100 ​mM NaCl or 50 ​mM bis-Tris/HCl (pH 6.0) containing 100 ​mM NaCl, depending on the experiment.
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6

Extraction and Characterization of Ascidian Chondroitin

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Ascidian (Halocynthia roretzi) tunics were purchased from a fresh market in Tongyeong, Korea. The tunics were washed with tap water and kept at −40 °C. Chondroitin AC lyase (EC 4.2.2.5) from Arthrobacter aurenses, chondroitin ABC lyase (EC 4.2.2.4) from Proteus vulgaris, monosaccharide standards, 1,9-dimethylmethylene blue, glucuronolactone and toluidine blue-O were obtained from Sigma-Aldrich (St. Louis, MO, USA); DEAE-Sepharose was obtained from GE Healthcare Bio-Sciences AB (Uppsala, Sweden). Human follicle dermal papilla (HFDP) cells (C-12071) were purchased from PromoCell GmbH (Heidelberg, Germany). Cells were cultured in follicle dermal papilla cell growth medium (C-26501, PromoCell GmbH, Heidelberg, Germany) supplemented with 10% fetal bovine serum (FBS, Thermo Fisher Scientific, Waltham, MA, USA), 50 units/mL of penicillin and 50 mg/mL of streptomycin. All the other reagents were of analytical grade.
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