Modulation of intra- and inter-sheet interactions in short peptide self-assembly by acetonitrile in aqueous solution
Deng Li1, Zhao Yurong1, Zhou Peng1, Xu Hai1, †, , Wang Yanting2, 3, ‡,
Center for Bioengineering and Biotechnology, China University of Petroleum (East China), Qingdao 266580, China
CAS Key Laboratory of Theoretical Physics, Institute of Theoretical Physics, Chinese Academy of Sciences (CAS), Beijing 100190, Chin
School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China

 

† Corresponding author. E-mail: xuh@upc.edu.cn

‡ Corresponding author. E-mail: wangyt@itp.ac.cn

Project supported by the National Basic Research Program of China (Grant No. 2013CB932804), the National Natural Science Foundation of China (Grant Nos. 91227115, 11421063, 11504431, and 21503275), the Fundamental Research Funds for Central Universities of China (Grant No. 15CX02025A), and the Application Research Foundation for Post-doctoral Scientists of Qingdao City, China (Grant No. T1404096).

S1. Experimental methods
S1A. Materials

The peptide KI4Kwas synthesized on a CEM Liberty microwave synthesizer by using the standard Fmoc solid phase synthesis strategy. The Rink amide resin was used in order to allow the C-terminus to be amidated and then the N-terminus was capped with acetic anhydride before cleavage from the resin. The detailed information for the synthesis and purification procedures have been described in our previous work.[1] The purity of the final products was ascertained bymatrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-ToF) and reversed-phase high-performance liquid chromatograph (RP-HPLC) analyses, indicating high purities (98%).

S1B. Sample preparation

The peptide fluffy powder was dissolved in Milli-Q water and acetonitrile mixture to create solutions with the concentration of 16 mM. The suspension was sonicated for about 10 min and then the resulting homogenous solutions were incubated for 7 days at room temperature before further characterization.

S1C. Atomic force microscopy (AFM)

AFM measurements were performed on a commercial NanoscopeIVaMultiMode AFM (Digital Instruments, Santa Barbara, CA) in the tapping mode. Samples for this characterization were prepared by dropping about 10-μL aged peptide solution onto the freshly cleaved mica surface and allowed to adsorb for about 30 s. The mica surface was then gently rinsed with water and dried by nitrogen gas. The scan rate was set to 1.50 Hz with the scan angle of 0°. All images were flattened by using a first-order line fit (the flatten function in AFM software) to correct for piezo-derived differences between scan lines.

S1D. S1D. Small angle neutron scattering (SANS)

The SANS experiments were performed on LOQ, ISIS Neutron Facility, Rutherford Appleton Laboratory (Oxford, UK). Samples for this experiment were prepared by directly dissolving the peptide powder in D2O/CD3CN mixture. The resulting homogenous solutions were incubated for 7 days and then transferred into the 2.0-mm path length disc-shaped silica cells for further characterization. Neutron incident wavelengths were from 2.2 Å to 10.0 Å at 25 Hz. The 64-cm2 detector with 5-mm resolution was placed at a distance of 4.05 m from the samples, giving a wave vector (q) range of 0.006 Å− 1 to 0.24 Å− 1. Data were corrected for wavelength dependence of the incident spectrum, the measured sample transmission, and also relative detector efficiencies prior to subtraction of the solvent background (D2O or D2O/CD3CN mixture). Absolute scaling was obtained by making a comparison with the scattering from a partially deuterated polystyrene standard. The data were then fitted by using the SansView 2.1.1 program provided by RAL.

S2. Details of simulation

Details of our simulation are listed in the following tables (Table S1 and Table S2).

Table S1.

Numbers of components and the relation between two ratios in different simulation systems.

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Table S2.

Average areas of shells around the proto-fibril in different distances.

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S3. Acetonitrile effects by experiment

The experimental results of the acetonitrile effects are plotted in the following figures (Figs. S1 and S2).

Fig. S1. AFM pictures of self-assembled KI4K structures in the solutions with different acetonitrile contents.
Fig. S2. SANS curves for the systems with different acetonitrile contents.
Reference
1Zhao Y RWang J QDeng LZhou PWang S JWang Y TXu HLu J R 2013 Langmuir 29 13457