Careina,
Feel free to contact me about these things without using the CCP4BB list.
I am sending this to the list with as purpose that others might in the
future refer people with questions about homology modelling to me. After
all, although the possibility to build homology models is one of
to predict dimerization mode first.
Happy Connecting. Sent from my Sprint Samsung Galaxy S® 5
Original message
From: Careina Edgooms <02531c126adf-dmarc-requ...@jiscmail.ac.uk>
Date: 3/2/18 6:44 AM (GMT-05:00)
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] vali
Dear Careina,
Your message is a bit confusing... Which kind of validation are you
referring to? Do you want to check the geometrical quality of the
backbone and side-chain rotamers, or do you want to evaluate how likely
it is that the fold proposed by homology actually represents the fold of
Hi Careina,
This is a little confusing. A homology model *is* a set of coordinates
(usually provided as a PDB file by most servers/packages I know of). The
MolProbity site at http://molprobity.biochem.duke.edu/ allows you to
upload your own PDB file, and in my experience is quite forgiving
Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] Im Auftrag von Careina
Edgooms
Gesendet: Freitag, 2. März 2018 12:44
An: CCP4BB@JISCMAIL.AC.UK
Betreff: [EXTERNAL] [ccp4bb] validating a homlology model
Dear all
What programs are best used for validate homology models? I know
On 02/03/2018 11:44, Careina Edgooms wrote:
What programs are best used for validate homology models? I know of molprobity but if there are no
coordinates I cannot use it. Is there a way to use such programs with homology models?
Also I wish to use pdbepisa for to charaterise dimer
Dear all
What programs are best used for validate homology models? I know of molprobity
but if there are no coordinates I cannot use it. Is there a way to use such
programs with homology models?
Also I wish to use pdbepisa for to charaterise dimer interface but again for
homology model this
