Hi Ashok,
You say your DNA is palindromic - have you looked at the possibility that the
longer DNAs are actually folded on themselves rather than duplexes of two
separete oligos? Depending on the location of the centre of your palindrome and
on interactions with adjacent molecules, this could
oks/2008/9780854042722.asp
From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Raji
Edayathumangalam [r...@brandeis.edu]
Sent: Sunday, May 05, 2013 7:39 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Missing DNA density in Protein DNA complex structure
Dear Ashok,
There are many
Dear Ashok,
There are many questions underlying your questions. A couple of things to
check right off the bat:
(1) Do you actually know that your crystal still contains all of the DNA bp
that you started with? Did you analyze the contents of your crystal by
native PAGE, mass spec or other methods
How is the DNA packed in the crystal? Coaxially stacked pseudo-infinite
helices?
--paul
On 05/05/2013 02:21 AM, ASHOK KUMAR Patel wrote:
Hi all,
I am working on a DNA binding protein (mol wt around 30 kDa), which
binds to Duplex DNA in a non-specific sequence manner. The structure
has been
Hi all,
I am working on a DNA binding protein (mol wt around 30 kDa), which binds
to Duplex DNA in a non-specific sequence manner. The structure has been
published with 12 base pair duplex DNA.
I am trying to understand the DBD protein DNA interaction even more by
choosing different lengths a
