Re: [ccp4bb] Autodock Vina output files

Thank you to all that replied. Your suggestions and advice was very helpful. Christine From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Harman, Christine Sent: Monday, February 25, 2013 5:47 PM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb

[ccp4bb] Autodock Vina output files

Hi All, I am sure that some of you have used AutoDock Vina so I thought I would give it a go and ask two questions. I performed a round of docking and obtained an output file containing 9 different models. The affinity (kcal/mol) ranged from -4.5 to -3.0. My first question is what is

[ccp4bb] Reading CCP4 maps into PyMol

Hi, Can anyone tell me how to open a CCP4 map in Pymol. Thanks, Christine

Re: [ccp4bb] Reading CCP4 maps into PyMol

Success! Thank you to everyone who replied :) From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Harman, Christine Sent: Friday, December 07, 2012 1:52 PM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] Reading CCP4 maps into PyMol Hi, Can anyone

[ccp4bb] Optimizing xtals conditions

Hi all, I need some advice on reproducing crystals that emerged in about 2 months from a screen. The background is I set up a 96-well hangdrop screen and checked the tray after 1 week and then every 2-3day for about 3 weeks. I did notice that this particular drop seemed very dynamic overtime.

[ccp4bb] Suggestion for storage buffer for protein

Hi All, I was wondering if any of you could recommend a buffer to store my Fab fragment for crystallization trials. My Fab is currently stored in 0.1M Sodium Acetate pH5, 150mM NaCl and I have had some success with crystallization hits (three conditions that have actually single crystals);

[ccp4bb] Question about PyMol

Hi All, Sorry for the dumb question, but if there was a way to export coordinates from PyMol. Is yes, then how? Thanks Christine

Re: [ccp4bb] Question about PyMol

: Re: [ccp4bb] Question about PyMol Yes. File - Save Molecule... James On Apr 11, 2012, at 1:17 PM, Harman, Christine wrote: Hi All, Sorry for the dumb question, but if there was a way to export coordinates from PyMol. Is yes, then how? Thanks Christine

Re: [ccp4bb] Disappearing crystals

to be wrong! Enrico. On Mon, 28 Nov 2011 19:19:49 +0100, YoungJin yj...@brandeis.edu wrote: On 11/28/11 12:04 PM, Harman, Christine wrote: Hi All, I have just noticed a very strange thing and need some help in understanding it. I recently found two crystals in a condition from a screen (0.05M

[ccp4bb] Magnetic anti-flag beads

Hi all, Sorry for the off-topic question, but I wanted to find out anyone's experience with using magnetic anti-flag beads (Sigma). I have been having a problem with the anti-flag antibody leaching from the beads during low pH elution ( which shouldn't be happening I am thinking) and was

[ccp4bb] UV imaging of crystals

Hi All, I was curious if any of you have tried or even know if it is possible to adapt a stereoscope (in my case an Olympus SZX10 model) so as to view protein crystals with UV illumination. Basically, I want a cheap manual version of what a Rock UV Imager does. I know this is probably a crazy

[ccp4bb] Flag tag vs. his-tag

Hi all, I am trying to decide between using a N-term his-tag or an N-term flag tag to be expressed on a protein that I will eventually want to try and crystallize. I usually don't cleave my tags unless absolutely necessary and I want to avoid double tagging. I am leaning towards the flag

Re: [ccp4bb] Flag tag vs. his-tag

will probably go with His. Thanks everyone for keeping me frugal. Cheers, Christine From: Chun Luo [mailto:c...@accelagen.com] Sent: Tuesday, April 19, 2011 3:18 PM To: Harman, Christine; CCP4BB@JISCMAIL.AC.UK Subject: RE: [ccp4bb] Flag tag vs. his-tag His-tag is close

Re: [ccp4bb] Fab:Peptide complex crystallization

Hi All, I want thank everyone who replied to my request on Fab:peptide crystallization. I received wonderful advice from all of you and it was very helpful in that I did get some beautiful crystals in my screens! Whether or not there is peptide bound is another matter..:). In case anyone of you

Re: [ccp4bb] Antibody digest with Ficin

Hi All, Thanks to all that replied for the advice, suggestions etc. about my antibody. I will definitely try the suggestions. Christine From: Sheemei Lok [mailto:sheeme...@yahoo.com.sg] Sent: Monday, May 17, 2010 9:56 PM To: Harman, Christine Subject: Re

[ccp4bb] Antibody digest with Ficin

Hi All, I figured there are plenty of Fab/peptide structures out there that I may find a crystallographer/antibody expert out there who can give me some advice. I am interested in obtaining a mFab/peptide complex structure. I have reached the stage where I have successfully produced Fab from