From: Klaus Futterer [mailto:[EMAIL PROTECTED]
Sent: Friday, September 21, 2007 5:06 AM
To: Soisson, Stephen Michael
Cc: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] How to calculate the contacts between the dimer-dimer
interface
BTW: I'm wondering about the 4A cut-off. Do distances great
ow all the residues on monA that are within 4 Ang. of Mon
B.
Steve
-Original Message-
From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of
Xiaoyi Deng
Sent: Thursday, September 20, 2007 1:26 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] How to calculate the contacts betwe
http://www.ebi.ac.uk/msd/
Go to msdpisa
E
Xiaoyi Deng wrote:
Dear all:
I used moleman2 to calculate the contacts between chain A and B. Can
anyone suggest a program to calculate the contacts between the
interface of dimer-dimer?
Thank you,
Xiaoyi
Graduate student
University of Nebraska
Xiaoyi,
When I'm interested in dimer interfaces, or protein ligand contacts I
usually use Molprobity to define the interface.
http://molprobity.biochem.duke.edu/
It is a bit of a process, but here's the rundown:
Load your .pdb into molprobity
Add hydrogens
Visualize interface contacts
Then sele
[mailto:[EMAIL PROTECTED] On Behalf Of
Xiaoyi Deng
Sent: Thursday, September 20, 2007 1:26 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] How to calculate the contacts between the dimer-dimer
interface
Dear all:
I used moleman2 to calculate the contacts between chain A and B. Can
anyone suggest a
Hi,
apart from the ccp4 "contact" it's also worth checking the following
servers:
pisa:
http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html
protein-protein interaction server:
http://www.biochem.ucl.ac.uk/bsm/PP/server/index.html
Cheers
Nikos
Xiaoyi Deng wrote:
> Dear all:
>
> I used moleman2
Dear all:
I used moleman2 to calculate the contacts between chain A and B. Can
anyone suggest a program to calculate the contacts between the interface
of dimer-dimer?
Thank you,
Xiaoyi
Graduate student
University of Nebraska Medical center
