SIMPLE: software for ab inito reconstruction of flexible single-particles

نویسندگان

  • H. Elmlund
  • D. Elmlund
چکیده

We have developed an ab initio single-particle 3D reconstruction algorithm for cryo-EM that does not rely on contrast enhancement by negative staining, assumptions about particle symmetry, or knowledge about the character of the heterogeneity [1-3]. Here we announce the release of the methods as an open source program package SIMPLE (Single-particle IMage Processing Linux Engine). SIMPLE enables semi-automated reconstruction of all structural states in the single-particle ensemble. SIMPLE is easy to use, yet provides a low-level image-processing engine with all the generated data, Euler angles, state assignments etc. readily accessible in text files. Documentation and executable binaries for Linux and Mac OSX are available at http://simple.stanford.edu.

برای دانلود رایگان متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

High level Ab inito bench mark computaions on weak interactions (H2)2 dimer revisited

The Potential Energy Surface PES of (H2)2 dimer has been investigated, using five simple rigid rotor models. These models are called: head to head, symmetric side to side, L , steplike and T model. All calculations were done at two levels of ab initio  methods: MP2(Full) and QCISD (T,Full) using cc-pVTZ basis set at singlet state of spin multiplicity. The results of scanning PES were then fitte...

متن کامل

3D Structural Fluctuation of IgG1 Antibody Revealed by Individual Particle Electron Tomography

Commonly used methods for determining protein structure, including X-ray crystallography and single-particle reconstruction, often provide a single and unique three-dimensional (3D) structure. However, in these methods, the protein dynamics and flexibility/fluctuation remain mostly unknown. Here, we utilized advances in electron tomography (ET) to study the antibody flexibility and fluctuation ...

متن کامل

Corrigendum: 3D Structural Fluctuation of IgG1 Antibody Revealed by Individual Particle Electron Tomography.

Commonly used methods for determining protein structure, including X-ray crystallography and single-particle reconstruction, often provide a single and unique three-dimensional (3D) structure. However, in these methods, the protein dynamics and flexibility/fluctuation remain mostly unknown. Here, we utilized advances in electron tomography (ET) to study the antibody flexibility and fluctuation ...

متن کامل

1 cis TEM , User - friendly software for single - particle image processing

7 We have developed new open-source software called cisTEM (computational imaging system 8 for transmission electron microscopy) for the processing of data for high-resolution electron 9 cryo-microscopy and single-particle averaging. cisTEM features a graphical user interface that is 10 used to submit jobs, monitor their progress, and display results. It implements a full processing 11 pipeline...

متن کامل

cisTEM, user-friendly software for single-particle image processing

We have developed new open-source software called cisTEM (computational imaging system for transmission electron microscopy) for the processing of data for high-resolution electron cryo-microscopy and single-particle averaging. cisTEM features a graphical user interface that is used to submit jobs, monitor their progress, and display results. It implements a full processing pipeline including m...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2012