Symmetry: A guide to its application in 2D electron crystallography

Hydrophobin film structure for HFBI and HFBII and mechanism for accelerated film formation

Hydrophobins represent an important group of proteins from both a biological and nanotechnological standpoint. They are the means through which filamentous fungi affect their environment to promote growth, and their properties at interfaces have resulted in numerous applications. In our study we have combined protein docking, molecular dynamics simulation, and electron cryo-microscopy to gain atomistic level insight into the surface structure of films composed of two class II hydrophobins: HFBI and HFBII produced by Trichoderma reesei. Together our results suggest a unit cell composed of six proteins; however, our computational results suggest P6 symmetry, while our experimental results show P3 symmetry with a unit cell size of 56 Å. Our computational results indicate the possibility of an alternate ordering with a three protein unit cell with P3 symmetry and a smaller unit cell size, and we have used a Monte Carlo simulation of a spin model representing the hydrophobin film to show how this alternate metastable structure may play a role in increasing the rate of surface coverage by hydrophobin films, possibly indicating a mechanism of more general significance to both biology and nanotechnology.

Filamentous fungi release a specific type of protein, belonging to a protein family known as “hydrophobins” into their environment to control interfaces in a fashion that promotes growth. Such protein coatings are the mechanism that allows for the mycelia to grow out of the water and into the air. When these hydrophobins form films at the air-water interface and on the surface of solid objects immersed in water, they impart properties to those surfaces that has led to their use in a wide range of industrial applications. Of particular interest is the properties they impart to air liquid interfaces, and as a mechanism to bring protective materials to coat nanoparticles in nanotechnology applications. A more detailed knowledge of the structure of these surfaces will allow for augmentation of their function that is possible through genetic engineering of the hydrophobins themselves. In this study we have combined computational and experimental methods to develop atomistic level insight into the structure of this surface for two important hydrophobins: HFBI and HFBII of Trichoderma reesei. In addition to insight into the surface structure, we have uncovered an intriguing possible new mechanism for film formation, which may explain some of the striking properties of hydrophobin films, and could be extended to a more general mechanism.

3D reconstruction from 2D crystal image and diffraction data

Electron crystallography of 2D protein crystals can determine the structure of membrane embedded proteins at high resolution. Images or electron diffraction patterns are recorded with the electron microscope of the frozen hydrated samples, and the 3D structure of the proteins is then determined by computer data processing. Here we introduce the image-processing algorithms for crystallographic Fourier space based methods using the Medical Research Council (MRC) programs, and illustrate the usage of the software packages 2dx, XDP, and IPLT.