Re: [ccp4bb] Why Do Phases Dominate?

Dear Bart, Thank you for further analysing this idea of "inherence", which is so striking in this case. I just wanted to point out that the most natural setting for Fourier transform theory is the space L2 of square-integrable functions (although L1 is the more natural one for convolut

Re: [ccp4bb] Butandiol as cryopotectant

Hi Ulrike, 2,3-butanediol has worked very nicely as a cryoprotectant. In my hands it mostly seems to decrease mosaicity. I was able to switch from a three-step soaking protocol with glycerol and glucose to a quick (30 second to one minute) soak with 2,3-BD. It's a winner. Steve I > Hello Ulr

Re: [ccp4bb] Why Do Phases Dominate?

Hi Jabob, Mathematics is abstract and does not cause anything (well maybe headaches). It describes behaviors of real-world phenomena and probably a lot of other things that have no tangible interpretation. What Gerard meant when he said that "Fourier transform is at the heart of diffraction"

Re: [ccp4bb] Butandiol as cryopotectant

Hello Ulrike, in our lab 2,3-Butanediol has had a good reputation. Tim On Mon, Mar 22, 2010 at 01:32:33PM +, Ulrike Demmer wrote: > Hi everybody, > > has anyone experience with Butandiol and its different isoforms as > cryoprotectant ? > > Thanks, > > Ulrike -- -- Tim Gruene Institut

[ccp4bb] Postdoctoral Position in Structural Biology of Nuclear-Cytoplasmic Transport at UT Southwestern

Postdoctoral Position in Structural Biology of Nuclear-Cytoplasmic Transport at UT Southwestern Applications are invited for a postdoctoral position in the Chook Lab, Department of Pharmacology, UT Southwestern, Dallas, TX, USA, to work on the structure determination, biochemistry and biophy

Re: [ccp4bb] Buried surface area (BSA) vs. oligomeric interface

Hi, have a look at this paper. I believe it's exactly what you're looking for. Protein-protein interaction and quaternary structure. Janin J, Bahadur RP, Chakrabarti P. Q Rev Biophys. 2008 May;41(2):133-80. Review.PMID: 18812015 http://www.ncbi.nl

[ccp4bb] 2010 NIGMS Enabling Technologies Workshop: Abstract Deadline Extended to COB March 26, 2010

Dear Colleagues, We are very keen to have the widest possible participation in the upcoming NIGMS Enabling Technologies in Structure and Function Workshop to be held in the Natcher Conference Center on the NIH campus on April 19-21, 2010. To encourage this we have extended the deadline for the

Re: [ccp4bb] self rotation education

I'll happily add my name to the consensus! However it's interesting to consider why some rotation functions are frankly uninterpretable and some, as George says, are spectacular. In fact the major cause of failure of MR has been known for a long time; in a word: incompleteness. The reason is obv

Re: [ccp4bb] Buried surface area (BSA) vs. oligomeric interface

Hi, just a place I would perhaps start looking: http://www.ebi.ac.uk/msd-srv/prot_int/picite.html ~L~ __ Lari Lehtiö Pharmaceutical Sciences, Department of Biosciences Åbo Akademi University, BioCity, FIN-20520 Turku Finland +358 2 215 4270 ht

Re: [ccp4bb] Question about mathematical modeling of membranes, pores and transporters

dear Partha, You could try looking up the biomodels database ( http://www.ebi.ac.uk/biomodels-main/). There must be several mathematical models in there that may be of use to you. regards Ganesh ** Blow, blow, thou winter wind Thou art not so unkind A

Re: [ccp4bb] Why Do Phases Dominate?

- Original Message - From: "Gerard Bricogne" To: Sent: Friday, March 19, 2010 2:32 PM Subject: Re: [ccp4bb] Why Do Phases Dominate? Dear Marius, Thank you for pointing this out - I was about to argue in the same direction, i.e. that the Fourier transform is at the heart of diffr

[ccp4bb] Butandiol as cryopotectant

Hi everybody, has anyone experience with Butandiol and its different isoforms as cryoprotectant ? Thanks, Ulrike

[ccp4bb] Buried surface area (BSA) vs. oligomeric interface

Dear All, We found that our structure is having a large buried surface in its dimer interface (~18% as calculated by AREAIMOL). This dimer has not been observed in earlier studies and right now we have less data to support this strong interface formation. I am looking for some literature whic

Re: [ccp4bb] inexpensive source of DDM

Hi Tony I use the US company Anatrace for bDDM it has various grades form around $640 to crystallisation grade at $785 for 25g. If you are interested in the Euro conversion this is ~460-580 Euro. Miroslav > > > Tony Wu wrote: >> >> Hello, >> >>     I am looking for an inexpensive US source fo

[ccp4bb] Buried surface area (BSA) vs. oligomeric interface

Dear All, We found that our structure is having a large buried surface in its dimer interface (~18% as calculated by AREAIMOL). This dimer has not been observed in earlier studies and right now we have less data to support this strong interface formation. I am looking for some literature whic

Re: [ccp4bb] self rotation education

Dear Elanor et al, On Mon, Mar 22, 2010 at 09:30:31AM +, Eleanor Dodson wrote: > A peak in a self rotation does NOT mean you have a dimer or a trimer > - just that one molecule in the asu can be related to another by the > given operator. Exactly - and sometimes even the notion of 'molecule'

[ccp4bb] Question about mathematical modeling of membranes, pores and transporters

Hello, >From experimental crystallography & kinetics background, I have arrived at a situation where I need to model certain membrane related phenomena and correlate it to experimental (metabolonomic) data. In particular, I am looking for mathematical expressions and derivations for: a) Change of

[ccp4bb] movies

Dear all, My group will be representing the MX users of Diamond at the Royal Society's 350th Anniversary Summer Science Exhibition http://royalsociety.org/Summer-Science-Exhibition-2010/ and for this we will be producing a short (15 minute) video to show the kind of work that we do at Diamond

Re: [ccp4bb] self rotation education

I have to agree with Clemens and Eleanor. After I had come to the wrong conclusion about NCS and the number of molecules in the asymmetric unit several times I gave up using the self-rotation function. Nevertheless, I have been shown examples (especially NCS with Cn symmetry and unsual n) where t

Re: [ccp4bb] Why Do Phases Dominate?

It is quite instructibe to draw the 2-d vector representing the amplitude and then the error vector when you assume certain things... Change the magnitude by 50% and see the error vector, then change the phase by a random shift - say 90 degrees and draw the error vector. In general it is much mo

Re: [ccp4bb] self rotation education

I absolutely agree with Clemens; self rotation functions can mislead in some cases, and confuse in many more.. A peak in a self rotation does NOT mean you have a dimer or a trimer - just that one molecule in the asu can be related to another by the given operator. So for any peak ther are nsym*