Re: [ccp4bb] Fw: [ccp4bb] conversion of .fcf to 2fo-fc.map and fo-fc.map of ccp4 format
Is COOT complaining because the SHELX output PDB has no spacegroup? If you run pdbset xyzin shelx.pdb xyzout shelx1.pdb SPAC P21 ( say) end it will add the SG to the CRYST1 card Eleanor Eleanor Paul Emsley wrote: Thanks George, Yes, COOT can open fcf.file and make beautiful maps. But I don't know whether COOT can generate different Fourier type maps like 2Fo-Fc, mFo-DFc, etc according to the fcf and pdb files I input. Coot does indeed make 2mFo-DFc and mFo-DFc maps (it's actually the clipper libs that do the heavy lifting). Coot uses only the .fcf file (not any pdb files) to do this. It seems to me COOT only generate Fo and Fo-Fc maps when the fcf file is loaded. Is this correct? That may well be correct if you are not using a modern version of Coot. Paul.
[ccp4bb] Post-doc position
Postdoc position in Protein-RNA crystallography A postdoc position is available in the group of crystallography headed by P. Dumas in the laboratory RNA Architecture and Reactivity at IBMC, Strasbourg (France). The position is for an HIV-related project that will focus on the structure of a ternary complex between (1) a tRNA(Lys,3) (diverted from the infected cell), (2) a fragment of the viral RNA and (3) the viral retrotranscriptase (RT). The formation of this ternary complex is a key step in the viral replication cycle since it occurs early and involves a cellular partner (the tRNA(Lys,3)) that is independent of any viral mutations. For that reason, it might be an excellent target for a new antiviral drug. The structural work will benefit strongly of a large body of previous solution studies. In particular, a selenomethionine viral RT, the tRNA(Lys,3), as well as viral RNA fragments of various lenght are routinely produced in our lab. We are equipped with a crystallization robot and with an X-ray facility for crystal testing. Our laboratory is located into a thriving environment for all aspects of RNA research. Qualification: The candidate should have a PhD with a background in RNA biology. An experience in X-ray crystallography will be strongly appreciated. How to apply: send a CV with a list of publications to Eric Ennifar: [EMAIL PROTECTED] Philippe Dumas IBMC-CNRS, UPR9002 15, rue René Descartes 67084 Strasbourg cedex tel: +33 (0)3 88 41 70 02 [EMAIL PROTECTED]
Re: [ccp4bb] conversion of .fcf to 2fo-fc.map and fo-fc.map of ccp4 format
Thanks George, So I wonder whether I can choose to generate different maps to look during refinement in COOT? In MIFit program, it is very easy to do this, but I just don't like the interface of MIFit, still loving COOT so much. deliang - Original Message - From: George M. Sheldrick [EMAIL PROTECTED] To: CCP4BB@JISCMAIL.AC.UK Sent: Friday, June 15, 2007 1:58 PM Subject: [ccp4bb] conversion of .fcf to 2fo-fc.map and fo-fc.map of ccp4 format I understand that when Coot reads the .fcf file it makes SigmaA weighted maps, i.e. 2mFo-DFc and mFo-DFc. These are the maps you should usually be looking at during the refinement. George Prof. George M. Sheldrick FRS Dept. Structural Chemistry, University of Goettingen, Tammannstr. 4, D37077 Goettingen, Germany Tel. +49-551-39-3021 or -3068 Fax. +49-551-39-2582 On Fri, 15 Jun 2007, deliang chen wrote: Thanks George, Yes, COOT can open fcf.file and make beautiful maps. But I don't know whether COOT can generate different Fourier type maps like 2Fo-Fc, mFo-DFc, etc according to the fcf and pdb files I input. It seems to me COOT only generate Fo and Fo-Fc maps when the fcf file is loaded. Is this correct? many thanks. Deliang
[ccp4bb] libstdc++.so.5: cannot open shared object file: No such file or directory
Hiys, I've got an hp pavillion dv2000 with a 64x2 processor and I loaded the redhat version of CCP4-6.0.2. I tried loading it manually but there was no configure or make files, so I went for the ./install.sh and ran the run-all on the /examples/ and got the error libstdc++.so.5: cannot open shared object file: No such file or directory for pretty much all of the progrrams. I know this is a library problem I've seen before but can't remember how to fix it. Your help would be appreciated. Thanks, Paul Dr. Paul Kraft Structural Biology Research Associate Dept. Biochemistry and Molecular Biology Laboratory of Dr. Barry Rosen Wayne State University School of Medicine 540 E. Canfield St. Detroit MI 48201 USA Ph: 313-577-0618 (Lab) fx: 313-577 2765 email: [EMAIL PROTECTED] - Shape Yahoo! in your own image. Join our Network Research Panel today!
