Dear all:
I want to calculate the rotation angle between two similar domains. By using
Coot, I can superposr the two domain and get the rotation matrix. But how to
convert this matrix to an angle. Is there any program can calculate this ?
Thanks.
--
Jiamu Du
State Key Laboratory of Molecular Bio
Jiamu Du schrieb:
Dear all:
I want to calculate the rotation angle between two similar domains. By
using Coot, I can superposr the two domain and get the rotation matrix.
But how to convert this matrix to an angle. Is there any program can
calculate this ?
Thanks.
Jiamu Du,
If you have the
Hello All,
I'm not trying to pick on Kay Diederichs here, but is anyone else
having trouble with Kay's email? I am using Mac Mail and it seems to
be crashing as a result of his cryptographic signature file. This
effect is not isolated as it crashes on both of my intel Macs. I am
running O
I am using OS X 10.4.10, G4 powerbook. I have no problem with Kay's
emails, just got a message with "Unable to verify message signature".
Jianghai
On Jul 7, 2007, at 12:38 PM, James Stroud wrote:
Hello All,
I'm not trying to pick on Kay Diederichs here, but is anyone else
having trouble
Hey, I have the exact same problem. I haven't been able to read
SMIME signed/encrypted emails now for some time (Mail just
crashes). It is an intel apple bug of some sort. If you find the
email in ~/Library/Mail, you can plain text cut out the sig and read
the email. [Ick] This is esp
When an app crashes, you should be getting a little dialog box with
the option to send a problem report of some kind to Apple. Send in the
report. This sends in some diagnostic details about Mail.app state
when the crash occurred to Apple. Like crash reports are grouped
together in a databa
S/MIME signed/encrypted messages started crashing my Mail app long
ago, after one of the first updates to 10.4. I probably sent in a
couple dozen of those crash reports, with absolutely zilch feedback,
and of course I still have the problem. From my end of things, those
crash feedbacks ar
On Jul 7, 2007, at 1:42 PM, Douglas L. Theobald wrote:
S/MIME signed/encrypted messages started crashing my Mail app long
ago, after one of the first updates to 10.4. I probably sent in a
couple dozen of those crash reports, with absolutely zilch feedback,
and of course I still have the pr
You will not get feedback. They do not disappear into a black hole though.
Think of it as a write-only drop box on a remote file system. Someone does
actually look at those things. There are certain religious analogies which
may be even closer to the mark, but I hesitate to go there.
Oh, go ah
It just takes AT&T and the NSA a bit of time to de-encrypt it. Eventually
you will wind up on the "Do not Fly" list.
Douglas L. Theobald wrote:
> S/MIME signed/encrypted messages started crashing my Mail app long
> ago, after one of the first updates to 10.4. I probably sent in a
> couple dozen
On Jul 7, 2007, at 3:09 PM, Robert Sweet wrote:
Oh, go ahead. Religious analogies are appropriate for Apple users,
aren't they?
Well, with the introduction of the iphone, we mac devotees are
presently devolving to something more akin to idolatry than actual
religion.
Thanks a lot.
You are so kind.
On 7/7/07, Kay Diederichs <[EMAIL PROTECTED]> wrote:
Jiamu Du schrieb:
> Dear all:
> I want to calculate the rotation angle between two similar domains. By
> using Coot, I can superposr the two domain and get the rotation matrix.
> But how to convert this matrix
Hi,
You can also use LSQKAB in CCP4 to get the angle between two similar domains.
-Debanu.
-Original Message-
From: CCP4 bulletin board on behalf of Kay Diederichs
Sent: Sat 7/7/2007 7:30 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] how to convert matrix to angle
Jiamu Du schr
Not that I want to open a can of worms here...
but could someone explain what is meant
with 'angle between domains'?
Thx, br
-Original Message-
From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of Das,
Debanu
Sent: Saturday, July 07, 2007 7:51 PM
To: CCP4BB@JISCMAIL.AC.UK
Sub
Hello All (Especially Doug),
I spent some time today talking to an apple rep--courtesy of my apple
care agreement ($$)--about some other aberrant behaviors of my
machine and he suggested the problem was in my NetInfo database and
that a rebuild was necessary
< http://docs.info.apple.co
Knee-jerk answer: The magnitude of the rotation component of the
transformation yielded from the optimal least squared superposition
of the two domains. Implicit is the ability to generate said least
squared superposition.
On Jul 7, 2007, at 8:21 PM, Bernhard Rupp wrote:
Not that I want t
Oh- let me try!!
Given two structures each containing the domains A and B,
the angle in question is the further angle through which
domain B of the second structure must be rotated to
superimpose it on domain B of the first structure,
after structure 2 has already been rotated to optimally
superp
My understanding of it is the following:
If there are two or more multi-domain proteins of similar structure/function,
etc., and if they have a different orientation of a particular domain, then
when you superimpose the two structures, they will not superimpose completely
because of the domain
I have found it.
Thanks.
On 7/8/07, Das, Debanu <[EMAIL PROTECTED]> wrote:
Hi,
You can also use LSQKAB in CCP4 to get the angle between two similar
domains.
-Debanu.
-Original Message-
From: CCP4 bulletin board on behalf of Kay Diederichs
Sent: Sat 7/7/2007 7:30 AM
To: CCP4BB@JISCMA
Hi I am refining a structure of protein, 2 molecules in the asymmetric unit. I
like to know whether it is possible to crystallize two different conformations
of a molecule in the same crystal.When I am trying to fit
n-octyl-beta-D-glucopyranoside into the density, I see sugar part of the ligand
In this connection I like to know how symmetry (in degrees and translation) is
calculated between two or more molecules in the asymmetric unit (A.U.).Suppose
if I download a PDB then I like to know the symmetry axis and center coordinate
of symmetry axis between two or more molecules in A.U. Th
I believe you can use lsqkab and DynDom. Get the direction cosines of the
rotation axis w.r.t. the centroid, etc. and also get a graphical representation
+ some more numbers for angular rotation, etc.
-Original Message-
From: CCP4 bulletin board on behalf of U Sam
Sent: Sat 7/7/2007 9:23
Wonder where I might find the older study weekend archives on the CCP4
site...
looking for MLPHARE ref
Ref: Z.Otwinowski: Daresbury Study Weekend proceedings, 1991
Thx br
-
Bernhard Rupp
001 (925) 209-7429
+43 (676) 571-0536
[EMAIL PR
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