Re: [ccp4bb] monomeric coiled coil--updated

2010-07-05 Thread Anastassis Perrakis
iation characteristics. 5. There are papers on capillary electrophoresis methods where they study exactly these effects (time of equilibrium vs time of separation). A. Maia - Original Message - From: "aidong" To: Sent: Sunday, July 04, 2010 3:01 AM Subject: Re: [cc

Re: [ccp4bb] monomeric coiled coil

2010-07-05 Thread Mark Agacan
Hi, 'The Role of Diffusion in Enzyme Kinetics' http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1367934/pdf/biophysj00672-0040.pdf Mark ~ Dr Mark Agacan, Scientific Officer for the Division of Biological Chemistry and Drug Discovery, Wel

Re: [ccp4bb] monomeric coiled coil

2010-07-05 Thread Anastassis Perrakis
Hi Jacob - Sorry if I caused any misunderstanding, but I am not saying that kD is not mattering in cells. Of course it should matter. I am making the distinction that the concentration dependent component of it, k(on), is of less importance, since in the viscous environment of a cell, the c

Re: [ccp4bb] monomeric coiled coil

2010-07-04 Thread Jacob Keller
4. The physiological concentration is a bit misleading. First, its clear now that cells have microenvironments, and 'physiological' concentrations are hard to define. Also, in a cell, I think (and I think others tend to agree) that kD plays little role at the end. kD is a combination of k(on) -

Re: [ccp4bb] monomeric coiled coil--updated

2010-07-04 Thread chern
Message - From: "aidong" To: Sent: Sunday, July 04, 2010 3:01 AM Subject: Re: [ccp4bb] monomeric coiled coil--updated > In light of several wonderful responses,I would like to provide an > update for this question: > > 1. I would agree that SEC might not be able

Re: [ccp4bb] monomeric coiled coil--updated

2010-07-04 Thread aidong
To: Sent: Saturday, July 03, 2010 6:26 AM Subject: [ccp4bb] monomeric coiled coil Sorry for this ccp4 unrelated question. We recently have a protein that a multicoil program (http://groups.csail.mit.edu/cb/multicoil/cgi-bin/multicoil.cgi/cgi-bin/multicoil ) predicts to have very high probabi

Re: [ccp4bb] monomeric coiled coil

2010-07-03 Thread Anastassis Perrakis
quot; To: Sent: Saturday, July 03, 2010 6:26 AM Subject: [ccp4bb] monomeric coiled coil Sorry for this ccp4 unrelated question. We recently have a protein that a multicoil program (http://groups.csail.mit.edu/cb/multicoil/cgi-bin/multicoil.cgi/cgi-bin/multicoil ) predicts to have very high proba

Re: [ccp4bb] monomeric coiled coil

2010-07-03 Thread chern
AM Subject: [ccp4bb] monomeric coiled coil Sorry for this ccp4 unrelated question. We recently have a protein that a multicoil program (http://groups.csail.mit.edu/cb/multicoil/cgi-bin/multicoil.cgi/cgi-bin/multicoil ) predicts to have very high probability for dimer and trimer. Their sco

[ccp4bb] monomeric coiled coil

2010-07-03 Thread aidong
Sorry for this ccp4 unrelated question. We recently have a protein that a multicoil program (http://groups.csail.mit.edu/cb/multicoil/cgi-bin/multicoil.cgi/cgi-bin/multicoil ) predicts to have very high probability for dimer and trimer. Their scores are close to 0.4 and 0.6 for lengths of mor