Softwares

Suites of programs for molecular replacement, EM icosahedral reconstructions, fitting of atomic models into EM maps and other utilities of MX and EM

Developer : Jorge Navaza

Last Modified: tomorrow

Overview :

These are the original codes developed by JN, kernel of the procedures developed by members of the laboratory. It is STRONGLY recommended to use the latter, as they are faster and contain graphic interfaces.

Download

ASCII files :

login

Binaries : Linux (32 bits) :

Molecular Replacement : amore.tgz --- Test data : rmn-CHF1

express Molecular Replacement : amore-em.tgz --- Test data : em-1V1J

Crystallography : dim3.tgz

Fitting of (MX) models into (EM) maps : uro.tgz

EM icosahedral reconstructions : rico.tgz --- Test data : vp2-T1 ; vp2.tif

Source version :

some sources available upon request (jorge.navaza)

Installation

Linux :

```
source login
```
```
tar -zxvf {name}.tgz
```

Requirements

Fortran77 compiler (e.g. g77, g95)

Publications

L.F. Estrozi & J. Navaza : "Fast Projection Matching for Cryo-electron Microscopy Image Reconstruction.", J. Struct. Biol. (2008). 162/2, 324-334

J. Navaza : "Combining X-ray and Electron-Microscopy data to solve crystal structures.", Acta Cryst. (2008). D64, 70-75

S. Trapani & J. Navaza : "Calculation of spherical harmonics and Wigner d functions by FFT. Applications to fast rotational matching in molecular replacement and implementation into AMoRe.", Acta Cryst. (2006). A62, 262-269

J. Navaza : "On the three-dimensional reconstruction of icosahedral particles.", J. Struct. Biol. (2003). 144, 13-23

J. Navaza, J. Lepault, F. Rey, C. Alvarez-Rua & J. Borge : "On the fitting of model electron densities into EM reconstructions: a reciprocal space formulation.", Acta Cryst. (2002). D58, 1820-1825

J. Navaza : "On the Computation of Structure Factors by FFT Techniques", Acta Cryst. (2002). A58, 568-573

J. Navaza : "Implementation of Molecular Replacement in AMoRe", Acta Cryst. (2001). D57, 1367-1372

J. Navaza, E.H. Panepucci & C. Martin : "On the Use of Strong Patterson Function Signals in Many-Body Molecular Replacement", Acta Cryst. (1998). D54, 817-821

J. Navaza : "AMoRe: an Automated Package for Molecular Replacement", Acta Cryst. (1994). A50, 157-163