# Difference between revisions of "Normal mode analysis HEXA"

From Bioinformatikpedia

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## Revision as of 13:33, 14 July 2011

## Contents

## Webnma

#### General information

#### Results

We analysed the five models with the lowest energy values. Webnma calculates fourteen different models with following energy values:

Mode Index | Deformation Energy |

7 | 1041.88 |

8 | 1318.21 |

9 | 1738.30 |

10 | 2841.31 |

11 | 3135.09 |

12 | 4100.18 |

13 | 3911.06 |

14 | 5337.50 |

15 | 5741.69 |

16 | 6513.85 |

17 | 6081.05 |

18 | 6882.96 |

19 | 7514.14 |

20 | 7943.67 |

We took the first five models (7, 8, 9, 10, 11).

Here you can see the normalized squared atomic displacments of our models:

model 7 | model 8 | model 9 | model 10 | model 11 |

Here you can see the motion of our analyses.

model 7 | model 8 | model 9 | model 10 | model 11 |

#### Discussion

## El Nemo

#### General information

#### Results

#### Discussion

## Anisotropic Network Model web server

#### General information

#### Results

Here you can see the B-factor distribution of the real occuring B-factors (black) and the calulated B-factors (blue).

model 1 | model 2 | model 3 | model 4 | model 5 |

In the next table, the motion of the protein of the different models is shown:

model 1 | model 2 | model 3 | model 4 | model 5 |

#### Discussion

## NOMAD-Ref

### General information

### Results

model 1 | model 2 | model 3 | model 4 | model 5 |

model 1 | model 2 | model 3 | model 4 | model 5 |

## All-atom NMA using Gromacs on the NOMAD-Ref server

### General information

### Results

#### 600K

Here you can see the motion of 1BPT at temprature 600K.

model 7 | model 8 | model 9 |

#### 2000K

Here you can see the motion of 1BPT at temprature 2000K.

model 7 | model 8 | model 9 |