[ccp4bb] Postdoctoral Position at UCSF - Structure of Receptor Tyrosine Kinases

2014-01-16 Thread Jura, Natalia
UNIVERSITY OF CALIFORNIA SAN FRANCISCO (UCSF) POSTDOCTORAL POSITION, JURA LAB Structural studies of receptor tyrosine kinases A postdoctoral position in Receptor Tyrosine Kinase Structural Biology is available immediately for highly motivated individuals with a strong interest in structural stu

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-16 Thread Ho Leung Ng
A favorite resource is Bart Hazes' web page on heavy atom derivatives. http://homepage.usask.ca/~pag266/bart-hazes.html Ho Ho Leung Ng University of Hawaii at Manoa Assistant Professor, Department of Chemistry h...@hawaii.edu

Re: [ccp4bb] determining "best" of alternative indexes with POINTLESS

2014-01-16 Thread Phil Evans
Indeed that is a bug. I've never tried that combination before. I'll fix it Phil On 16 Jan 2014, at 20:32, wtempel wrote: > Hello, > using merged scalepack intensities and a reference MTZ file as inputs, I > would like to prepare an MTZ of scalepack intensities reindexed so that the > intensi

[ccp4bb] determining "best" of alternative indexes with POINTLESS

2014-01-16 Thread wtempel
Hello, using merged scalepack intensities and a reference MTZ file as inputs, I would like to prepare an MTZ of scalepack intensities reindexed so that the intensities optimally correspond to those in the reference MTZ file. Invoking POINTLESS with the CELL, SCAIN, HKLREF keywords results in CCP

Re: [ccp4bb] is there any DNA?

2014-01-16 Thread Shane Caldwell
Hi Qing, If you have enough sample, you can just run a standard agarose gel with ethidium bromide. I've had a spectrum with peaks at 260 and 280 and the co-purifying RNA showed up clearly when I threw the fractions on an agarose gel. Also check that your protein is expected to have a "normal" abs

Re: [ccp4bb] Docking model

2014-01-16 Thread FOOS Nicolas
Hi Thomas, maybe you can try to use AMBER programs. http://ambermd.org/ I think these programs allow you to use different forcefield to minimise the energy of your model. Hope to Help Nicolas De : CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] de la part d

[ccp4bb] Docking model

2014-01-16 Thread Thomas RORET
Hi, I made one docking model of a protein complex by NMR and another one by modeling. I wanted to knowwhich software to useto minimize the energy (close contacts, H bonds, ...) best regards, Thomas. -- Thomas RORET BioMod Team Tel. 00 333 83 68 47 89 CRM2 UMR CNRS-UL 7036 Faculté des Sciences

[ccp4bb] Abstract Submission for BCA Spring Meeting 2014

2014-01-16 Thread Jonathan Cooper
Dear BCA members, The 2014 Spring BCA meeting is not far away now and the abstract submission deadline is fast approaching – 1 week remains! Abstracts can be submitted at: http://www.hg3.co.uk/bca/ The deadline for submissions is 9 am on Monday January 20th. This deadline applies to both oral a

Re: [ccp4bb] R-factors from SfCHECK versus R-factors from PHENIX

2014-01-16 Thread Eleanor Dodson
SFCHECK is a very quick and dirty report generator - On 15 January 2014 21:42, Pavel Afonine wrote: > Hi Ursula, > > you will find answers here: > http://www.phenix-online.org/papers/he5476_reprint.pdf > > Pavel > > > On Wed, Jan 15, 2014 at 1:38 PM, Ursula Schulze-Gahmen > wrote: >> >> I am sub

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-16 Thread Gaudet, Rachelle
Hi John, Another way to screen for mercury derivatives. Rachelle vincent Chaptal wrote: Hi Rhys, you already have a lot of suggestions to try. We all have our own reciepe for good derivatization, and this is due to the fact that we don't really understand what is going on. I can't explain

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-16 Thread David Briggs
Hi Rhys, It's worth paying close attention to your crystallisation conditions as well - some heavy atom compounds will not be at all soluble in very alkaline (they'll form insoluble hydroxides) or phosphate/sulphate containing mother liquors. A very low pH may reduce the binding efficiency of som

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-16 Thread RHYS GRINTER
Hi All, A truly herculean response! Thanks everyone, I will process all of the information and come up with a strategy. Rhys

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-16 Thread vincent Chaptal
Hi Rhys, you already have a lot of suggestions to try. We all have our own reciepe for good derivatization, and this is due to the fact that we don't really understand what is going on. I can't explain why one HA binds to my protein while the other one doesn't, but I can visualize it and henc

Re: [ccp4bb] Best compounds for heavy atom soaks

2014-01-16 Thread David Hall
Hi Rhys Following up on Santosh's post if you are visiting Diamond for your data collections we do have a Xenon cell available: http://www.diamond.ac.uk/mx-home/Equipment-on-Demand/Xe-Chamber.html If you want to use it please let your local contact know in advance. Dave From: CCP4 bulletin bo