[ccp4bb] How to run Java program?

2007-04-03 Thread yang li
Hi, I have a java program named Switch.java, I want to run it under fedora5 core, I donnot know any compiler I need to install? I installed a package named jre-1_5_0_11- linux-i586-rpm.bin, when I use command java Switch.java wrong information came out: Exception in thread "main" java.lang.NoCl

[ccp4bb] ECM24 Morocco

2007-04-03 Thread Eleanor Dodson
Message from Eleanor Dodson I am chairing a session at the ECM 24 to be held in Morocco at the end of August on *Advances in crystallographic phasing and refinement* I am interpreting this as mostly to be about Macromoolecular studies. There are 6 slots for speakers, 2

[ccp4bb] Question about cryoprotectant

2007-04-03 Thread yang li
Hi, l have a crystal grow at condition screen l 40: 0.1M tri-sodium citrate dihydrate pH5.6 isoproponal 20%PEG4k 20% and the crystal need a cryoprotectant, we have used the 30% glycerol but it is not good, the mosaicity of the diffraction pattern is a little high, so anyone knows which is the be

Re: [ccp4bb] How to run Java program?

2007-04-03 Thread Kevin Cowtan
The file you need to run should end .class or .jar. If you don't have such a file, you'll need to compile it first. You probably need a java sdk rather than jre, although gcj might do the trick. Then: javac Switch.java should make the .class file. (You may need to include the path to your jav

Re: [ccp4bb] How to run Java program?

2007-04-03 Thread Justin Schmitz
Kevin Cowtan schrieb: The file you need to run should end .class or .jar. If you don't have such a file, you'll need to compile it first. You probably need a java sdk rather than jre, although gcj might do the trick. Then: javac Switch.java should make the .class file. (You may need to includ

Re: [ccp4bb] Question about cryoprotectant

2007-04-03 Thread artem
Dear Yang Li, Cryoprotection of crystals is not an exact predictive science - you have to try a number of things, and in the worst case scenario, none of the stuff you try may work out. Assuming that your crystals are OK to start with (capillary mounted room temp. pattern would confirm that), you

[ccp4bb] Reseach Associate position

2007-04-03 Thread dirk . kessler
Dear All, Please pass the following advertisement on to anyone you think might be interested in this position. Thank you. With best regards, Dirk - -

[ccp4bb] Refinement of low resolution structures

2007-04-03 Thread Paul Paukstelis
Hi all, I'm refining the structure of a complex at low resolution (4.5). Certainly refinement at low resolution will become more common, but there isn't a whole lot out there now to use as a guide. I've incorporated most of the suggestions from DeLaBarre and Brunger, but I'm looking for any o

Re: [ccp4bb] Refinement of low resolution structures

2007-04-03 Thread Edward A. Berry
Sounds like a pretty successful refinement, given the resolution! The fact that releasing NCS improves R-free suggests there are real ncs violations (otherwise releasing ncs increases R-free). But they may be confined to a few residues in contact areas. You can locate these violations by comparin

Re: [ccp4bb] Question about cryoprotectant

2007-04-03 Thread mjvdwoerd
I would recommend any one of these things: 1. Increase the concentration of the chemicals present, i.e. add more iso-propanol OR add more PEG, but use a low molecular weight, like PEG400. Either one or both. You will need 5% glycerol to get a good (ice-free) cryo-condition or 10% PEG400 or 10

[ccp4bb] Postdoctoral position, Division of Structural Biology, Oxford

2007-04-03 Thread Robert Gilbert
We are using a combination of X-ray crystallography and cryo-EM to determine the structures of eukaryotic ribosomes undergoing translation initiation and during elongation (refs 1,2). To help us further develop our programme, we are seeking to appoint a Post-Doctoral Research Assistant, initiall

Re: [ccp4bb] pdb-l: Sequence Location in Protein Tertiary Structure

2007-04-03 Thread Lucas Bleicher
By the way, I'll extend that question: the validation software Verify3D assigns not only buried state but also polar fraction and secondary structure, using the probability of finding given residues in the different "environment" defined when combining all this information to calculate a "score" of