Re: [ccp4bb] Reverse Translatase

2010-09-08 Thread Jürgen Bosch
A large amount of hypotheticals can be found in Plasmodium :-) Jürgen - Jürgen Bosch Johns Hopkins Bloomberg School of Public Health Department of Biochemistry & Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Phone: +1-410-614-4742 Lab:

Re: [ccp4bb] Reverse Translatase

2010-09-08 Thread Ed Pozharski
David is absolutely right. There is no design, Jacob, we just instinctively look for it everywhere because seeking purpose instead of understanding mechanism conveys advantage to our species. Your rationale is flawed - just because it is imaginable (with caveats) does not mean that it must exist

[ccp4bb] ARP/wARP 7.1; ccp 6.1.13 and Mac OSX 10.6 (64bit fink)

2010-09-08 Thread Leiman Petr
Dear All, My new Mac is affected by a bizarre software bug (or a feature), which has been reported on this board earlier. In fact, it has been more than a year since this problem was first reported, but it has not been resolved yet as far as I can tell. Namely, it is not possible to add the ARP/wA

[ccp4bb] Postdoctoral position in structural biology at Celgene, San Diego.

2010-09-08 Thread Balvinder Dhaliwal
Dear CCP4bb, I am posting an advert for a postdoctoral position at Celgene, San Diego on behalf of a friend. Please apply for this position via the Celgene website at www.celgene.com :- *A postdoctoral fellow is sought in structural biology at Celgene, San Diego.* Celgene is a multinational

Re: [ccp4bb] Reverse Translatase

2010-09-08 Thread Robert Immormino
Hi Jacob and Mike, An additional thought exercise would be to consider if your exogenously added protein is itself heritable. Essentially trying Mike's idea 1, but instead of expecting the protein to get into the genome and in that way have it's "information" stored, look to see if the protein it

Re: [ccp4bb] Reverse Translatase

2010-09-08 Thread Michael Thompson
Hi Jacob, A couple more things to think about: 1.) How to get a Nobel Prize: Try an experiment if you have the means. Transform/transfect your favorite cell type with exogenous protein sequences. Sequence and see if they ever appear in the genome. Go after it... 2.) I realize that the idea of

[ccp4bb] Post Doc Opportunity to post, please

2010-09-08 Thread Chandra Farnsworth
I would like to have the following Post Doc Research Fellow opportunity posted please. Thanks very much, Chandra *Chandra Farnsworth* *Staffing Consultant* Genentech, Inc. Research and Early Development 650-225-7110 --

Re: [ccp4bb] Weak diffraction...

2010-09-08 Thread Tim Gruene
Dear Daniel, probably the first and easiest thing you could check is whether the freezing conditions are suboptimal, by a room temperature measurement. If that fails, you can add another purification step to your complex (certainly worth a try), and/ or a restricted proteolysis, which might chop

Re: [ccp4bb] protein dimensions

2010-09-08 Thread Tim Gruene
On Wed, Sep 08, 2010 at 08:21:33PM +0200, Nikos Pinotsis wrote: > quite straightforward with > moleman2 > and the command stat ... after the command 'xyz align', but the 'stats'-command tells you about it. Tim > > On Wed, September 8, 2010 19:37, Brett, Thomas wrote: > > Hi all: > > Is there prog

Re: [ccp4bb] non-identical complexes in the asymmetric unit

2010-09-08 Thread Tim Gruene
Hello Rongjin Guan, when I enter 'dimer ncs' at www.ixquick.com, there are quite a few hits, some of which could be of interest for you. Why do you think this could be a crystallization artefact? Tim On Wed, Sep 08, 2010 at 12:50:43PM -0400, Rongjin Guan wrote: > Dear All, > > I have a structur

[ccp4bb] Weak diffraction...

2010-09-08 Thread Daniel Lee
Hi Cyrstallographers I made the crystal of triple complex and the M.W is about 500 kDa. However, the diffraction is about 8 A. At first, the crystal form was needle. the needle form was changed by addtive screening. the crystal condition is under 1 M ammonium formate with Hepes (pH 7.5). Cr

Re: [ccp4bb] protein dimensions

2010-09-08 Thread Nikos Pinotsis
quite straightforward with moleman2 and the command stat On Wed, September 8, 2010 19:37, Brett, Thomas wrote: > Hi all: > Is there program or utility out there that will give maximum protein > dimensions (length and width) from the pdb file? I'm sure there is, just > curious what people use. > Th

[ccp4bb] protein dimensions

2010-09-08 Thread Brett, Thomas
Hi all: Is there program or utility out there that will give maximum protein dimensions (length and width) from the pdb file? I'm sure there is, just curious what people use. Thanks, -Tom

Re: [ccp4bb] non-identical complexes in the asymmetric unit

2010-09-08 Thread Roger Rowlett
I don't think this is uncommon at all. For example, we published a structure where 10 chains did not bind ligand at all, and 2 chains did in the ASU (see PDB 3E3I). We have also recently solved a structure where two active sites in the ASU are in different states

[ccp4bb] non-identical complexes in the asymmetric unit

2010-09-08 Thread Rongjin Guan
Dear All, I have a structure with two complexes in the asymmetric unit, and the interactions on the interface are not the same in the two complexes. Briefly, there are two additional hydrogen bonds in one complex, but not in the other. This coule be due to crystallization artefact, but may have

Re: [ccp4bb] Reverse Translatase

2010-09-08 Thread David Schuller
On 09/07/10 22:10, Jacob Keller wrote: In terms of "usefulness," I was actually thinking about cells learning how to make new proteins from other cells, Which they do already by exchanging genes or perhaps an immune system could use the info to make the right choice of starting materials. Th

Re: [ccp4bb] degradation of MBP fusion protein

2010-09-08 Thread Jovine Luca
On Sep 8, 2010, at 6:31 AM, Jerry McCully wrote: > Dear All: > > In my case, a 15KD protein without disufide bonds was expressed as > inclusion bodies in E.coli but can be refolded as monomers with a very low > solubility. > > Adding glycerol did not help so far. > > To incre

[ccp4bb] EU-Greece co-funded Post doc positions

2010-09-08 Thread Irene Margiolaki
Expression of Interest The Section of Genetics, Cell Biology and Development, Department of Biology, University of Patras, Greece, is seeking potential postdoctoral partners of any nationality for a joint grant application to fund 2-3 years research projects

[ccp4bb] EU-Greece co-funded Post doc positions

2010-09-08 Thread Irene Margiolaki
Expression of Interest The Section of Genetics, Cell Biology and Development, Department of Biology, University of Patras, Greece, is seeking potential postdoctoral partners of any nationality for a joint grant application to fund 2-3 years research projects