Hello,
I know what the problem is now (it is assuming that the spectrum
dimensions for the x and z axes are in the same order as the window, and
that is not the case here). But this is definitely a non-trivial thing to
fix so will take a bit of time.
Wayne
On Tue, 28 May 2013, Xue Liu wrote:
>
> Hi Wayne,
> I am using linux(remote logged in from windows). And please see the project folder in the
> attachment.
> Thank you very much for your help!
>
> Best regards,
>
> Xuehui
>
> ___________________________________________________________________________________________
> From: Wayne Boucher <[log in to unmask]>
> To: Xue Liu <[log in to unmask]>
> Sent: Wednesday, May 29, 2013 7:01 AM
> Subject: Re: Problem with the Assignment: Protein Sequence Assignment
>
> Hello,
>
> I spoke with Tim today (he's working in another location these days, so I
> don't see him that often) and he suggested that you send us the project
> (not the spectra) zipped or tar gzipped, so I mean the directory
> containing the project.
>
> Regards, Wayne
>
> On Tue, 28 May 2013, Wayne Boucher wrote:
>
> > Hello,
> >
> > That is odd. If you click on the same row in the top table a second time
> > does it then sort itself? By the way, are you using Windows (so rather than
> > Linux)? It's possible there is some odd Windows-specific issue here (for
> > reasons I can't guess!).
> >
> > Wayne
> >
> > On Mon, 27 May 2013, Xue Liu wrote:
> >
> >> Hi Wayne,
> >> Thank you for the suggestion. But I think that maybe not the problem, cause
> >> I have only one set of resonance.
> >> This is what I did, is there anything wrong?
> >> 1. Open the spectra (I opened Nhsqc, cbcaconh, hncacb)
> >> 2. Manually peak picked the Nhsqc.
> >> 3. Assignment->Initialise Root Resonace (selected the sidechains and
> >> confirm)
> >> 4. Assignment->Pick & Assign form Root (adjust the tolerence 0.2ppm for N15
> >> and 0.02ppm for proton)->Pick all
> >> & Assign Root Resonance
> >> 5. Molecule->Add seqence (To build the protein molecule)
> >> 6. Window->Clone (To clone a triple resonance window, say the former one is
> >> window3, the new one is window4)
> >> 7. Assignment->Protein sequence Assignment (query window use window3 and
> >> cbcaconh, match window use window4
> >> and hncacb. leave {options}untouched)
> >> 8. in the {spin systems tab}, when I click on one spin system, I could see
> >> the query window works ok, but the
> >> match window doesn't show any match strips. It seemed that the match window
> >> had found something, since when I
> >> click on differenct spin systems, different numbers of strips were opened.
> >> But nothing is in the strip
> >> because every strip in the match window is showing the middle of proton
> >> chemical shift, lowest N15 chemical
> >> shift and the right C13 chemical shift.
> >>
> >> I've attached a screenshot, hope I could do that in a maillist and you can
> >> see it.
> >>
> >> Thank you very much!
> >>
> >> Best Regards,
> >>
> >> Xuehui
> >>
> >>
> >>__________________________________________________________________________________________
> ___________________
> >> From: Wayne Boucher <[log in to unmask]>
> >> To: [log in to unmask]
> >> Sent: Friday, May 24, 2013 5:13 PM
> >> Subject: Re: Problem with the Assignment: Protein Sequence Assignment
> >>
> >> Hello,
> >>
> >> Tim suggests to check that the triple resonance peaks in both spectra are
> >> assigned to amide root resonances and that both spectra are assigned to
> >> the same set of resonances.
> >>
> >> Wayne
> >>
> >> On Wed, 22 May 2013, Xue Liu wrote:
> >>
> >> > Hi
> >> > I am a new user of the CCPNMR and am trying a backbone assign job with it
> >> now. I think i've followed
> >> > every step of the tutorial
> >> （http://www.ccpn.ac.uk/software/tutorials/analysis-beginners）, but I got
> >> > this problem with the Protein Sequence Assignment. When I click on the
> >> spin systems, I should get the
> >> > matching strips on the Match Window according to the turtorial, but I get
> >> nothing but hollow strips
> >> > showing the middle of proton chemical shift range and N15 set to the
> >> lowest frequency with the C13
> >> > showing the Ca and Cb ruler positions.
> >> > I 've tried several times and I even tried the windows version. I also
> >> checked the mailing list posts
> >> > for answers but I did not find anything.
> >> > By the way, I am using CBCACONH in the query window and HNCACB in the
> >> match window.
> >> > Can anyone give some suggestion on this, thanks a lot.
> >> >
> >> >
> >> > Best Regards,
> >> >
> >> > Xuehui
> >> >
> >> >
> >>
> >>
> >
>
>
>
