Sorry, I just figured out how to post to the CCP4bb instead of sending a
private email.
Here are two missed messages that I think should appear on the board:
----- Original Message -----
From: "Miles Pufall" <[EMAIL PROTECTED]>
To: "Zhijie LI" <[EMAIL PROTECTED]>
Sent: Tuesday, February 19, 2008 5:03 PM
Subject: Re: Check the conformation of one important amino acid
Hi -
I've never tried it! Fast and easy is good...I'll try it out.
I have found both SA-omit and composite omit maps to be very helpful -
I've found alternate potential alternate builds and flat out wrongheaded
model building, but I am nowhere neae as experienced as Dr. Rice, so
maybe I need the check more than she does. I think that computers have
gotten fast enough that taking too long isn't as big an issue as it once
was. I calculated a full composite omit map on an older MacBook Pro of a
1.7 angstom 32KDa structure and it took about 3 hours. Any desktop will
do better than that.
Give it a try and see if what you get! Good luck.
Miles
On Feb 19, 2008, at 12:08 PM, Zhijie LI wrote:
What about Bhat's omit program included in the CCP4 package? I found it
to
be very fast and easy to use. Also it allows to manipulate the map
coefficients.
I had read a summary that Dr. Rice made in 2002 about the omit map
calculations: http://www.ysbl.york.ac.uk/ccp4bb/2002/msg01030.html. I
wonder
if there have been any updates during the last 5 years?
Miles Pufall
Postdoctoral Scholar
Yamamoto Lab
UC San Francisco
Cellular and Molecular Pharmacology
Mail Stop 2280
600 16th Street, Genentech Hall S-574
San Francisco, California 94158-2517
(415)476-4480
--
No virus found in this incoming message.
Checked by AVG Free Edition.
Version: 7.5.446 / Virus Database: 269.20.8/1077 - Release Date: 2/19/2008
12:00 AM
