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6 protocols using rink amide resin

1

Synthesis of Fmoc-Protected Peptide F6C11

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All Fmoc-protected
amino acids,
Rink Amide resin, and 2-(1H-benzotriazol-1-yl)-1,1,3,3-tetramethyluronium
hexafluorophosphate were purchased from Anaspec, Inc. The peptide
F6C11 was prepared according to our previous paper.45 (link) All the other reagents were used as received.
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2

Synthesis and Characterization of C16GSH Peptide Amphiphiles

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The GSH peptide was purchased fully protected on rink amide resin (China Tech Peptides Co., Suzhou, China) or synthesized on rink amide resin (Anaspec, Fremont, CA) using an automated PS3 Benchtop Peptide Synthesizer (Protein Technologies, Tucson, AZ). Fatty acid tails were conjugated to the lysine residue of the peptide as described previously35 to create C16GSH PAs (Fig. 1). The synthesis products were precipitated in diethyl ether and purified to above 90% purity on a Shimadzu CBM-20A high-performance liquid chromatography (HPLC) system in reverse phase, employing a Waters Symmetry 300 semipreparative C8 column. Product identity was confirmed by mass spectrometry, employing an Applied Biosystems 4700 Proteomics Analyzer, and purity was determined using analytical HPLC with a Waters Symmetry 300 analytical column. Exact concentrations were determined by UV spectroscopy,38 (link) and it was determined that the peptides accounted for 60% of the measured mass of peptide salts. This correction was taken into account when considering molarity.
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3

Synthesis and Purification of Chlorotoxin Peptide

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Chlorotoxin (CTX) was purchased from Iris Biotech GmbH (Marktredwitz, Germany). CTX fragments were chemically synthesized using standard stepwise Fmoc solid-phase peptide synthesis methods on the rink amide resin (Anaspec, Fremont, CA, USA) using an automated PS3 bench top peptide synthesizer (Protein Technologies, Tuscon, AZ, USA). Peptides were deprotected and cleaved from the resin using the following cleavage cocktail: 95% TFA: 2.5% TIPS: 2.5% H2O (v/v/v). The peptide was then precipitated and washed several times with cold diethyl ether, dissolved in 50% acetonitrile:50% H2O, lyophilized, and stored as lyophilized powder. Crude peptide mixtures were purified by reversed-phase HPLC (RP-HPLC) on a C18 preparative column (Phenomenex Jupiter 250 × 21.2 mm, 10 μm, 300 Å). The peptides were eluted with a 1% gradient from 1 to 60% of solvent Β in solvent A over 60 min at the flow rate of 5 ml/min (Solvent A: 0.05% TFA/water, Solvent B: 0.05% TFA in 90% acetonitrile/water). The purified fractions were characterized by a SCIEX 5800 MALDI TOF/TOF mass spectrometer (SCIEX, Foster city, CA, USA).
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4

Epigenetic Modification Analysis Toolkit

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Unless specified otherwise, laboratory chemicals
and reagents were purchased from Sigma-Aldrich and used without additional
purification. Peptide synthesis reagents, including Fmoc amino acids
and Rink-amide resin, were purchased from Anaspec. Selectively methylated
Fmoc-arginine amino acids and H-Ala-sulfamylbutyryl NovaSyn TG resin
are products of Novabiochem (EMD Millipore). Plasmids containing human
PCAF and histone H3.3 were purchased from ATCC, and remaining molecular
biology materials were purchased from Invitrogen. Oligonucleotide
primers were from Integrated DNA Technologies. Restriction endonucleases,
recombinant human histones, and control DNA were purchased from New
England Biolabs. Histone H3R8me2a protein was purchased from ActiveMotif.
Spectrophotometric data were collected on a DU-640 spectrophotometer
(Beckman Coulter) unless indicated otherwise. Matrix-assisted laser
desorption/ionization (MALDI)-time of flight (TOF) and self-assembled
monolayers with matrix-assisted laser desorption-ionization (SAMDI)-TOF
mass spectrometry were performed on a 4800 MALDI TOF/TOF mass spectrometer
(Applied Biosystems) by manual and automated protocols. High-resolution
proteomic data were obtained on an Orbitrap Velos mass spectrometer
equipped with a nanoflow HPLC (Thermo Scientific). Gel filtration
was performed on an ÄKTA FPLC. All experiments were performed
in triplicate.
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5

Phosphatase Activity Assay Protocol

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Laboratory chemicals and reagents were purchased from MilliporeSigma and used without additional purification unless specified. Peptide synthesis reagents, including Fmoc amino acids and Rink-amide resin, were purchased from Anaspec. Phosphatases were purchased from MilliporeSigma. Self-assembled monolayers with matrix-assisted laser desorption-ionization (SAMDI) mass spectrometry were performed on a 5800 MALDI TOF/TOF mass spectrometer (AbSciex) using either manual or automated protocols. A detailed protocol of monolayer plate preparation, peptide synthesis and phosphatase assay can be found in a previously published method paper.44 (link)
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6

Peptide Synthesis Using Fmoc Chemistry

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Peptides were manually synthesized using standard fmoc chemistry with blocked amino acids obtained from Anaspec, Inc. Each peptide was synthesized on a 0.1 mmol scale. Rink amide resin from Anaspec, Inc. was used as the solid support to provide C-terminal amidation. 31, 32 HPLC purification was done with a Vydac 218TP510 C-18 reversed-phase column on a Waters 600 system using an acetonitrile (ACN) solvent gradient from 20%
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