[ccp4bb] problem with installation of Balbes 1.0.0

Hello all, following the latest workshop, we decided to replace the old 0.0.1 version of Balbes by its more recent 1.0.0 version. We followed the steps described in README for Installing BALBES under Your CCP4 Package but this is not sufficient. Here is the error message we get: A package

[ccp4bb] SSM superposition of a heterodimer of related chains such that A-B and B-A

Dear All, I have a heterodimer of two related subunits (A and B). Now I want to superimpose it using a secondary structure matching (SSM) algorithm (e.g. CCP4 superpose or the coot algorithm) such that the superposition matches A onto B and B onto A at the same time. For a

[ccp4bb] surface charge residues prediction server

Dear all, I came across an online program long way back that I could not longer remember (embarrassing...). But there should be a program that will take in my protein sequence and generate a list of charge residues that may be solvent exposed for potential mutation to improve solubility or

[ccp4bb] AW: [ccp4bb] surface charge residues prediction server

Hi Jacob, i think you search this link: http://nihserver.mbi.ucla.edu/SER/ best regards, Hüsnü J. Topal Ruhr-Universität Bochum Institut für Physiologische Chemie, MA 2/141 Abteilung für Biochemie supramolekularer Systeme Universitätsstr. 150 44801 Bochum, Germany phone: +49 (0)

Re: [ccp4bb] surface charge residues prediction server

Got answers in a matter of minutes, thanks to all!!! -jacob http://nihserver.mbi.ucla.edu/SER/ On 2/12/10, Jacob Wong jacob.j.w...@gmail.com wrote: Dear all, I came across an online program long way back that I could not longer remember (embarrassing...). But there should be a program that

[ccp4bb] Position for a specialist in BV infected insect cell expression

A global healthcare leader, Novartis has one of the most exciting product pipelines in the industry today. A pipeline of innovative medicines brought to life by diverse, talented, performance-driven people. All of which makes us the most rewarding employer in our field. Lab Head in the

[ccp4bb] coot regularize

I am a new user of Coot and I ran into problems with the regularize option that I cannot figure out. My model consists of 4 fragments that came out of Resolve. I noticed that the 5 C-terminal residues should actually be connected between 2 fragments in the middle of the molecule. So, I

[ccp4bb] regularize in Coot

I am a new user of Coot and I ran into problems with the regularize option that I cannot figure out. My model consists of 4 fragments that came out of Resolve. I noticed that the 5 C-terminal residues should actually be connected between 2 fragments in the middle of the molecule. So, I

[ccp4bb] regularize in Coot

I am a new user of Coot and I ran into problems with the regularize option that I cannot figure out. My model consists of 4 fragments that came out of Resolve. I noticed that the 5 C-terminal residues should actually be connected between 2 fragments in the middle of the molecule. So, I renumbered

Re: [ccp4bb] regularize in Coot

Ursula Schulze-Gahmen wrote: I am a new user of Coot and I ran into problems with the regularize option that I cannot figure out. My model consists of 4 fragments that came out of Resolve. I noticed that the 5 C-terminal residues should actually be connected between 2 fragments in the middle of

[ccp4bb] SHELXL refinement

Hello everyone, I have one more non-CCP4 related question again. I have been trying to refine a structure using SHELXL at ~1.0A. I added waters using SHELXWAT, however, it seems that the water molecules are not getting refined in the subsequent cycles. (B factor is at 50.00 for all of

Re: [ccp4bb] SHELXL refinement

Hi Ajit- Sounds like maybe you haven't defined the refinement to include your waters explicitly. Did you edit the parameter list near the top of the .ins file (like ISOR, CONN, BLOC commands) to include your newly added waters? HTH- Brad On Fri, Feb 12, 2010 at 4:45 PM, Ajit Datta

Re: [ccp4bb] SHELXL refinement

I haven't had the good fortune of using SHELXL in a few years, but I seem to recall that you need to make sure that you don't have an END statement preceding your newly added waters. Check this after each cycle of SHELXWAT. best wishes kmj On Fri, Feb 12, 2010 at 1:45 PM, Ajit Datta

[ccp4bb] Imidazole maleate

Hello, I have been using Imidazole maleate pH 5.5 buffer from Axygen Biosciences. Axygen Biosciences discontinued selling crystallography reagents. Does anyone know about the formulation of Imidazole maleate or anyplace that sells this reagent? Thanks! Regards, Ankit

Re: [ccp4bb] SHELXL refinement

Thanks for the help everyone. I ended up finding what Kevin suggested was the problem. The END statement was not in the right place but before the water molecules. Thanks again, Ajit B. - Original Message - From: Kevin Jude kj...@berkeley.edu Date: Friday, February 12, 2010 4:21 pm

[ccp4bb] slow graphic in mac 10.6

HI,Dear All, sorry for this non-crystallgraphic question, but I think people here may know how to fix this problem. Several days ago, I posted a question about slow coot in my mac and people suggested me change some settings in coot which does help. However, I still feel something is wrong. I

Re: [ccp4bb] slow graphic in mac 10.6

Dear Rui: Did you by any chance install an old ppc version of X11 onto an intel machine? If so, it might be running via Rosetta, which is an emulator provided for transition, but could account for lousy performance. OS X 10.6 comes with X11 installed by default, so you might have clobbered