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Hi All,

I'm new to protein backbone assignment by NMR, and my protein is about ~37kDa (about 400 residues). We've acquired a series of triple resonance spectra: HNCA, HNCACB, HNCOCACB, HNCOCA, and HNCACO. I also have an HQCS spectrum. While I know how magnetization is transferred in the above mentioned experiment, how do I start assigning my protein? I use NMRpipe to process the spectra and Sparky for assignment.

Thanks a lot!

asked Jun 28 '12 at 15:06

snoopster398's gravatar image

snoopster398
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Have a look on this good website: http://www.protein-nmr.org.uk/ - Yoan Monneau (Jun 29 '12 at 05:27)


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Hey!

Have you tried using PINE-SPARKY? I haven't used it myself (I do metabolomics, not protein structures), but I've come across it a few times looking for software. It seems to help you by doing semi-automated assignments.

http://pine.nmrfam.wisc.edu/PINE-SPARKY/

Hope this helps!

–Davis

link

answered Jun 29 '12 at 10:52

DVigneault's gravatar image

DVigneault
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Davis, just to explain how this forum works - instead of posting multiple answers - edit the one you already gave. - Evgeny Fadeev (Jun 29 '12 at 13:03)

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Also, here is a tutorial that goes through the basics, as well as whatever software that you might need.

http://www.protein-nmr.org.uk/

link

answered Jun 29 '12 at 10:57

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DVigneault
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Ahh! Didn't realize that this link had already been suggested in the comments. Sorry! - DVigneault (Jun 29 '12 at 11:03)

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