and other errors since here the data do not allow occupancy
> refinement.
>
> Best,
> Herman
>
>
>
> -Original Message-
> From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of James
> Holton
> Sent: Friday, November 19, 2010 9:20 PM
> T
Behalf Of James
Holton
Sent: Friday, November 19, 2010 9:20 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] relationship between B factors and Koff
I don't think there is any relationship between rate constants and B factors.
Yes, there is the hand-wavy argument of "disorder beget
The journal was Molecular Physics (1987) Vol 62(2), 451-459.
(my brain librates when I type)
Daniel Anderson wrote:
Maybe you should look at: "Rotation barriers in crystals from atomic
displacement parameters" Emily Maverick and Jack Dunitz (1987) Vol
62(2), 451-459.
They reported that the l
Maybe you should look at: "Rotation barriers in crystals from atomic
displacement parameters" Emily Maverick and Jack Dunitz (1987) Vol
62(2), 451-459.
They reported that the libration amplitude of one part of a crystalline
small molecule relative to another part is strongly correlated to bond
I don't think there is any relationship between rate constants and B
factors. Yes, there is the hand-wavy argument of "disorder begets
disorder" (and people almost always LITERALLY wave their hands when they
propose this), but you have to be much more careful than that when it
comes to thermod
Sebastiano,
We observed similar phenomenon in our protein-protein complex. This
reference will give you details (Crystal Structure of an Electron Transfer
Complex between Aromatic Amine Dehydrogenase- Azurin from Alcaligenes
faecalis, Biochemistry, 45, 13500-13510, 2006).
Sukumar
Narayanasami Su
hage proteins with
immobilized Escherichia coli RNA polymerase. J Mol Biol 88(2):373-383.
JPK
- Original Message -
From: "Tanner, John J."
To:
Sent: Friday, November 19, 2010 11:25 AM
Subject: Re: [ccp4bb] relationship between B factors and Koff
This doesn't di
This doesn't directly address your question, but since the subject of analyzing
protein-protein interactions with gel filtration is raised on this bb
occasionally, I thought I would mention that there are cases in which
conventional gel filtration chromatography fails to provide evidence of a kn
D/DE
Cc: CCP4BB@jiscmail.ac.uk
Subject: Re: [ccp4bb] relationship between B factors and Koff
Well, if one of the components is a small peptide and the solutions are dilute,
it is hard to concentrate the complex, as the free peptide will go through the
concentrator! It's a tricky problem.
JP
vember 19, 2010 3:57 PM
> To: Schreuder, Herman R&D/DE
> Cc: CCP4BB@jiscmail.ac.uk
> Subject: Re: [ccp4bb] relationship between B factors and Koff
>
> I should add that this procedure is really only advantageous for high Koff
> complexes. If the complex does not dissociate
:57 PM
To: Schreuder, Herman R&D/DE
Cc: CCP4BB@jiscmail.ac.uk
Subject: Re: [ccp4bb] relationship between B factors and Koff
I should add that this procedure is really only advantageous for high Koff
complexes. If the complex does not dissociate appreciably in the time required
for SEC, I a
d be basically 1:1 when it
>> comes out, even with a high Koff. (Alternatively, for true equilibrium
>> conditions, just equilibrate the entire column in A, then inject the
>> complex.)
>>
>> JPK
>>
>> - Original Message -
>> From: &qu
Hi Sebastiano,
I don't see how the k-off would influence this, given the timescale of growing
crystals.
An explanation in terms of high Kd and relative lack of crystal contacts for
the component with higher temperature factors would sound more convincing to
me.
Mark
Quoting Vellieux Freder
.uk] On Behalf Of Jacob
> Keller
> Sent: Friday, November 19, 2010 3:01 PM
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] relationship between B factors and Koff
>
> A suggestion for purifying the complex: let's say there is a 5mL gap between
> the complex and one of
.
Best, Herman
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Jacob
Keller
Sent: Friday, November 19, 2010 3:01 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] relationship between B factors and Koff
A suggestion for purifying the complex
ot;
To:
Sent: Friday, November 19, 2010 7:32 AM
Subject: Re: [ccp4bb] relationship between B factors and Koff
Hi Sebastiano,
I have had some experience with protein:protein complexes with KD ~
10-1 uM, kinetic characterization and trying to purify a complex of
these proteins using SEC. While I
Hi Sebastiano,
I have had some experience with protein:protein complexes with KD ~
10-1 uM, kinetic characterization and trying to purify a complex of
these proteins using SEC. While I would say that if you have reliable
evidence from SPR that you have a fast on (high Kon), then you must
I can direct you to PDB entry 1EWY, where the average isotropic
temperature factor for the major component of the complex is ca. 47 A**2
and that for the smaller component is ca. 69 A**2. Similar values than
the ones you are reporting. I am assuming some sort of "disorder", or if
you prefer, "w
Hi all,
I have a crystallographical/biochemical problem, and maybe some of you guys can
help me out.
We have recently crystallized a protein:protein complex, whose Kd has been
measured being ca. 10 uM (both by fluorescence polarization and surface plasmon
resonance).
Despite the 'decent' affini
19 matches
Mail list logo