Re: [ccp4bb] Off-topic - Crystallisation in anaerobic glove box

2015-03-18 Thread Edward A. Berry
Do you have evidence that the oil blocks diffusion of O2? O2 is a nonpolar molecule, generally much more soluble in oils than in water. I'm not sure about silicone oils, but I would think they also dissolve O2 readily. eab On 03/18/2015 08:02 AM, Patrick Shaw Stewart wrote: Hi Steve I have

Re: [ccp4bb] Off-topic - Crystallisation in anaerobic glove box

2015-03-18 Thread Patrick Shaw Stewart
Hi Steve I have one more comment for this thread. The microbatch-under-oil method is very handy for anaerobic work: 1. You can keep the microbatch stock solutions in normal microtitre plates (polypropylene is best to reduce evaporation) for months, which hugely reduces the amount of degassing

Re: [ccp4bb] OS X yosemite

2015-03-18 Thread Xiao Lei
Hi Mirek, I have to reinstall xquartz to get my ccp4 and coot working after upgrading to Yosemite from Mavericks. Xiao On Tue, Mar 17, 2015 at 4:30 PM, Cygler, Miroslaw miroslaw.cyg...@usask.ca wrote: Hi, I am thinking of upgrading the os on my mac to Yosemite. Are there any known issues

[ccp4bb] PhD position in Durham

2015-03-18 Thread POHL E.
Project description Herbicide resistance of weeds is a major challenge for global food production. The situation becomes particularly severe when weeds become resistant to multiple modes of herbicide action (multiple herbicide resistance=MHR). This collaborative project between Durham

Re: [ccp4bb] Graphics cards for Coot, Pymol, Chimera on MacBook Pro Laptop

2015-03-18 Thread Xiao Lei
Hi Marc, I have a Macbook pro Mid 2009 model (with integrated graphics card) and I can run coot and pymol without any problem ( I haven't tested on Chimera), I do not think a discrete graphics is needed. However, for pymol I can not use the stereo function. I do not know if the discrete graphic

Re: [ccp4bb] Off-topic - Crystallisation in anaerobic glove box

2015-03-18 Thread Julia Griese
Hi, As far as I can tell oil does not block diffusion of O2 whatsoever. You can keep larger volumes (≥1 ml) of solutions anoxic in air for several hours with dithionite (≥0.5%) to scavenge oxygen and a redox indicator dye such as phenosafranin to monitor the state of the solution. Small

[ccp4bb] Antw: Re: [ccp4bb] Offtopic: Software to closely visualize interacting partnets in protein complex

2015-03-18 Thread Matthias Barone
Hi, I just checked the PIC sever tim suggested. very nice indeed. If you only want to map different interfaces and the amino acids involved in, I suggest to run the pisa server, too. http://www.ebi.ac.uk/pdbe/pisa/ . I used it extensively to find out whether a certain set of crystal contacs

Re: [ccp4bb] Off-topic - Crystallisation in anaerobic glove box

2015-03-18 Thread Ronald E Stenkamp
I also wondered about the statement about oils blocking diffusion of O2. We had lots of trouble keeping things anaerobic in a glove box until we degassed the oils and waxes used to mount crystals in capillaries. We found that putting them under vacuum removed much of the dissolved oxygen.

Re: [ccp4bb] Off-topic - Crystallisation in anaerobic glove box

2015-03-18 Thread Tristan Croll
It's a little complicated. It's true that oxygen is more soluble in most oils than in water - but in a high viscosity mineral oil the diffusion rate is orders of magnitude lower. So the combination of an oil overlay and a reducing agent in your buffer should protect your sample much longer than

[ccp4bb] Group Leader position in Helsinki, Finland

2015-03-18 Thread Tommi Kajander
(Reposting this position as it didnt go to the jobs list..:) On behalf of the search committee (see links below): -- The Institute of Biotechnology is a leading European research institute within the University of Helsinki with a mission to increase knowledge in cross‐disciplinary biology

[ccp4bb] Mosquito Tips (4.5mm / 9.0mm)

2015-03-18 Thread Paul Smith
Hello CCP4, Sorry for the labware related post, but I think this is the right audience. I have 4 new reels of mosquito tips with 4.5mm pitch (for 384 well setups, TTP labtech part number 4150-03010). I only use 96well format, thus am looking to swap these for 9mm pitch (part number 4150-03020).

Re: [ccp4bb] Off-topic - Crystallisation in anaerobic glove box

2015-03-18 Thread Edward A. Berry
Actually I may have misunderstood the original post. Patrick never said oils block O2 diffusion: On 03/18/2015 09:47 AM, Edward A. Berry wrote: The microbatch-under-oil method is very handy for anaerobic work: (In a glove box, of course) 1. You can keep the microbatch

Re: [ccp4bb] Graphics cards for Coot, Pymol, Chimera on MacBook Pro Laptop

2015-03-18 Thread mesters
Hello Marc, obvious differences between card are memory bandwidth, intel 13 GB/sec vs. nvidia 29 GB/s, the texture rate, 2 GTexel/s vs. 31 GTexel/s, and pixel rate, 0.5 GPix/s vs. 15.5 GPix/s. Some of these values result because of graphics memory differences. There is no difference in