Re: [ccp4bb] Molscript and symbolic label

Before providing the label with the 'label' command, you must set the 'labelmask' to contain a '%g' at the Position of your greek letter, e.g. set labelmask '.%g' label "Ca" should produce an 'alpha' for the second letter. As far as I remember, this does not work with Raster3d-Output, though, y

[ccp4bb] Suse 10.2 install problem

Hi, I installed ccp4 (along with others such as coot) on Suse 10.2. Everything seemed to go well at first. The gui pops up normally. But when I try to run a process the gui shows the process as "starting" and it hangs there never switching to "running". And there is no log file available i

Re: [ccp4bb] Ligand fitting in COOT and SHELX refinement

You can use SHELXPRO to generate ligand restraints, reading in the ligand from the CSD or as a SHELX file (which if necessary can be generated from a PDB file using SHELXPRO). You may have to add some extra restraints by hand (e.g. FLAT, CHIV). George Prof. George M. Sheldrick FRS Dept. Struct

[ccp4bb] POST DOCTORAL POSITION IN STRUCTURAL ENZYMOLOGY AND INHIBITOR DESIGN

** POST DOCTORAL POSITION IN STRUCTURAL ENZYMOLOGY AND INHIBITOR DESIGN ** A post doctoral position is available immediately in the laboratories of Vern Schramm and Steve Almo in the Department of Biochemistry at the Albert Einstein College of Medicine. This program utilizes high resolution crysta

[ccp4bb] model building and hardware (tangent)

this post is is tangential to the model building/hardware thread - anything useful presented here is purely coincidental: tangible model building action shot: http://puffer.tamu.edu/cs_computer.htm [slide all the way to the right] http://www.bassictech.com/blogs/bassictech_news_blog/archive/200

[ccp4bb] [Fwd: Re: [ccp4bb] Flat Screen and Stereo]

Adding the following commands to my xorg.conf file "fixed" my problem: Section "Extensions" Option "Composite" "Disable" EndSection The screen now makes an attempt to run stereo: it will draw two sets of lines and the eDimensional glasses now work. But the flickering is unbearable

Re: [ccp4bb] Flat Screen and Stereo

Rather strangely my stereo set uses the following Option "AllowDFPStereo" "on" I look forward to hearing how you get on as all my past experience with stereo and LCD screens was less than positive Hope this helps Mike -Original Message- From: CCP4 bulletin board on behalf of James M.

Re: [ccp4bb] Flat Screen and Stereo

I don't know if this will help but the NVIDIA readme says it should be a BOOLEAN after ALLOWDFPSTEREO. You have: Option"AllowDFPStereo" "1" Change to:Option"AllowDFPStereo" "true" Hope that helps. I'd be curious as to how an LCD works for stereo. Good luck, James

Re: [ccp4bb] Flat Screen and Stereo

Hi, The following web page should answer your question: http://pymol.sourceforge.net/stereo3d.html On a related note, I recently came across a new 22" LCD stereo system which is below $1000 and requires polarized glasses ($10 each). It doesn't seem to be set up for OpenGL yet, so isn't suitab

[ccp4bb] Flat Screen and Stereo

Hello, I have been having a problem getting stereo to work on the lab's new flatsceeen ( i know, i know. CRTs = much better but i think the purchaser was overcome with flatscreen lust). I am using a Dell 3007WFP (2560x 1600, refresh rate = 60hz) attached to nVidia Quadro FX 4500 graphics car

[ccp4bb] Molscript and symbolic label

Hi I would appreciate knowing how to make label of symbolic letters like alpha, beta, pi etc. using molscript. Thanks. Sam _ Make every IM count. Download Windows Live Messenger and join the i’m Initiative now. It’s free.   http://i

Re: [ccp4bb] How to replace 2.45M K/Na phosphate buffer - 2

at around 4 molar P-buffer freezes clean. Best wishes Kornelius On Fri, 22 Jun 2007 14:42:00 +0200 Claudia Scotti <[EMAIL PROTECTED]> wrote: > Sorry: forgotten the pH: the crystals grow between pH 6.5 > and 6.7. > > Claudia > > > Claudia Scotti > Dipartimento di Medicina Sperimentale > Sezio

Re: [ccp4bb] How to replace 2.45M K/Na phosphate buffer - 2

Dear Claudia, >These crystals dissolve in several cryoprotectant solutions and survive only >in malonic acid, with which they give diffraction at 7-8 A. You do not mention what the room temperature diffraction is like. If you have not tested it already, you should do so - even without malonat

[ccp4bb] How to replace 2.45M K/Na phosphate buffer - 2

Sorry: forgotten the pH: the crystals grow between pH 6.5 and 6.7. Claudia Claudia Scotti Dipartimento di Medicina Sperimentale Sezione di Patologia Generale Universita' di Pavia Piazza Botta, 10 27100 Pavia Italia Tel. 0039 0382 986335/8/1 Facs 0039 0382 303673 --

[ccp4bb] How to replace 2.45M K/Na phosphate buffer

Dear list, I've crystals in a condition including 2,45 M K/Na phosphate buffer for the well condition, and 1 microl protein + 0.8 microl Na/K phosphate buffer + 0.25 microl 30% 1,6-hexanediol in the drop condition. These crystals dissolve in several cryoprotectant solutions and survive only in

Re: [ccp4bb] Save image in Postscript format from PYMOL

Hi, Stefan Your advice is wonderful! This is the easiest way!! Thank you very much!!! Jiahai On 6/22/07, Stefan schmelz <[EMAIL PROTECTED]> wrote: Hi Jiahai, there is an easy way to move labels in pymol. You have to change your Mouse Mode from "3-Button Viewing" to "3-Button Editing". Than

Re: [ccp4bb] Open position at the crystallography platform, Heidelberg University Biochemistry Center

Whereas I am young, cheap and very very easy -- phwooaaarrr!! Gebhard Schertler wrote: Sorry Irmi, I am too old and expensive. All the best. good luck Gebhard On 22 Jun 2007, at 09:17, Klemens Wild wrote: Institution: Heidelberg University Biochemistry Center (BZH) and Cluster of Excel

Re: [ccp4bb] Open position at the crystallography platform, Heidelberg University Biochemistry Center

Sorry Irmi, I am too old and expensive. All the best. good luck Gebhard On 22 Jun 2007, at 09:17, Klemens Wild wrote: Institution: Heidelberg University Biochemistry Center (BZH) and Cluster of Excellence (CellNetworks) Location: Heidelberg, Germany URL: www.uni-heidelberg.de/zentral/bzh/ S

Re: [ccp4bb] Save image in Postscript format from PYMOL

Hi, Julie, Thank you very much for your kindly reply! But it seems this function can not set the individual label position. For example, one label is set at ( 2, 1,-0.5) while another label is set at (1, 2, 3). Is there a way to set the label position one by one? Your help is highly appreciate

Re: [ccp4bb] Ligand fitting in COOT and SHELX refinement

U Sam wrote: Hi I would like to know following issue for a ligand. A ligand of a long alkyl chain can have multiple conformation. In coot in order to fit any protein residues into "difference Density", we can select a specific "rotamer" conformation and refine. For fitting ligand of above kind,

[ccp4bb] Open position at the crystallography platform, Heidelberg University Biochemistry Center

Institution: Heidelberg University Biochemistry Center (BZH) and Cluster of Excellence (CellNetworks) Location: Heidelberg, Germany URL: www.uni-heidelberg.de/zentral/bzh/ Start: As soon as possible Duration: 4 years Salary: According to the German public service tariff scale TV-L. Description:

Re: [ccp4bb] Save image in Postscript format from PYMOL

Pymol version 0.99 has the option to set the label position, similar to eg. molscript. Go to Select - Edit all - scroll down to label-offset - edit the x,y,z parameters. Pymol version 0.98 does not have this option. Julie. shi jiahai wrote: Hi, all I am drawing some stereo images with lab

Re: [ccp4bb] mac pro configuration for crystallographic computing

Hi, the FX4500 is what Mac likes to sell to us but in principle the driver should be able to work with any Nvidia card of the same family (quadro FX). These type of cards have hardware openGL implemented on a chip, instead of partly emulating the commands by software. This makes the quadro ca