[ccp4bb] About SAD phasing

Hi, All I would like to ask whether is it possible to allocate the Se site and obtain the phase by just using the SAD data set (no native dataset used)? Thanks, Qing

[ccp4bb] To calculate Domain-domain orientation

Dear all, Problem is coming one after another. I got another question about how to calculate the domain/domain orientations (tilt and twist angles). Sorry I probably disturb a bit often I searched a lot, but no publication says how it was calculated. Does anybody know anything about thi

Re: [ccp4bb] domain contact surface

Ed Pozharski wrote: http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html Try PISA server - it will identify contacts and report total buried surface area per contact. On Fri, 2010-02-19 at 16:42 +0100, Jane Bailey wrote: Dear all, I am trying to calculate the domain-domain contact surface

[ccp4bb] domain contact surface

Dear all, I am trying to calculate the domain-domain contact surface from one chain. I see AREAIMOL to only tell you the accessible surface area/residue. Could any other software/webserve could specify residues in the contact surface and calculate the total contact area? Thanks J.

[ccp4bb] DSSP server

Hello all, I am sorry for this off-topic question. I see it has been discussed many times, but somehow I got stuck in the very beginning. I want to assign ss to my pdb file in DSSP, but I could not find a server to run it. Does anybody know a webserver where I could run this kind of tasks? I

[ccp4bb] refmac problem

Hello again I am refine my model using TLS and restrained refinement, and I got below the error message from refmac although the program claim to be successful. There is no output mtz and pdb files. Any suggestions are appreciated! Many thanks! Jane ***TLS refinement cycle***7 1

[ccp4bb] refmac problem

Hello again I am refine my model using TLS and restrained refinement, and I got below the error message from refmac although the program claim to be successful. There is no output mtz and pdb files. Any suggestions are appreciated! Many thanks! Jane ***TLS refinement cycle***7

[ccp4bb] xds process gave different cell parameters

Hi I was processing my data with XDS several runs, they gave slightly different cell parameters everytime, eg: 1) 77.100 103.850 116.550 90.00 90.00 90.00 P 21 21 21 2) 77.086 103.821 116.533 90.00 90.00 90.00 P 21 21 21 I have already a refined model from 1), can I use this m

Re: [ccp4bb] to extract protein sequence from a rebuilt pdb file

nfield St. == > == Detroit, MI 48201 U.S.A == > == Phone: +1-313-577-0618 (lab) == > +1-248-412-3758 (Cell) == > ==== > > --- On *Wed, 10/1/08, Jane Bailey <[EMAIL PROTECTED]>* wrote: > > From: Jane Bailey <[EMAIL

[ccp4bb] to extract protein sequence from a rebuilt pdb file

Hi, all I am currently rebuilting my structure in coot, and the protein sequence is around 98% rebuilt yet. I am looking for a way to extract protein sequence from the rebuilt.pdb so that I could see clearly which part need to be rebuilt by sequence alignment. Any ideas about this? thanks Best J