NMR Sparky Yahoo group Help for backbone assignment using NCACO and NCOCA

		BioNMR > NMR community > News from other NMR forums
[NMR Sparky Yahoo group] Help for backbone assignment using NCACO and NCOCA

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

Torsion angles from chemical shifts:

Preditor

TALOS

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

TALOS

MICS caps, β-turns

d2D

PECAN

Flexibility from chemical shifts:

RCI

Interactions from chemical shifts:

HADDOCK

Chemical shifts re-referencing:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

Quality Control Check

NMR spectrum prediction:

FANDAS

MestReS

V-NMR

Flexibility from structure:

Backbone S2

Methyl S2

B-factor

Molecular dynamics:

Gromacs

Amber

Antechamber

Chemical shifts prediction:

From structure:

Shiftx2

Sparta+

Camshift

CH3shift- Methyl

ArShift- Aromatic

ShiftS

Proshift

PPM

CheShift-2- Cα

From sequence:

Shifty

Camcoil

Poulsen_rc_CS

Disordered proteins:

MAXOCC

Format conversion & validation:

CCPN

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

DisMeta

Protein solubility:

Isotope labeling:

Solid-state NMR:

Thread Tools

Search this Thread

Rate Thread

Display Modes

05-15-2013, 03:12 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,777

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

Help for backbone assignment using NCACO and NCOCA

Help for backbone assignment using NCACO and NCOCA

Hi All, I am new to Sparky. I am trying to use NCO, NCACO and NCOCA spectra to get assignment for protein structure. If anybody has proper instruction to do

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR Sparky Yahoo group] Help for backbone assignment using NCACO and NCOCA Help for backbone assignment using NCACO and NCOCA Hi All, I am new to Sparky. I am trying to use NCO, NCACO and NCOCA spectra to get assignment for protein structure. If anybody has proper instruction to do More...	nmrlearner	News from other NMR forums	0	05-13-2013 11:36 AM
[Question from NMRWiki Q&A forum] A beginner's guide to protein backbone assignment? A beginner's guide to protein backbone assignment? 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!	nmrlearner	News from other NMR forums	0	06-29-2012 08:44 AM
[NMR paper] Backbone NMR assignment of the 19 kDa translationally controlled tumor-associated pro Backbone NMR assignment of the 19 kDa translationally controlled tumor-associated protein p23fyp from Schizosaccharomyces pombe. Related Articles Backbone NMR assignment of the 19 kDa translationally controlled tumor-associated protein p23fyp from Schizosaccharomyces pombe. J Biomol NMR. 2000 Jan;16(1):83-4 Authors: Baxter NJ, Thaw P, Higgins LD, Sedelnikova SE, Bramley AL, Price C, Waltho JP, Craven CJ	nmrlearner	Journal club	0	11-18-2010 09:15 PM
Corrigendum to “BEST-HNN and 2D (HN)NH experiments for rapid backbone assignment in p Corrigendum to “BEST-HNN and 2D (HN)NH experiments for rapid backbone assignment in proteins” Publication year: 2010 Source: Journal of Magnetic Resonance, In Press, Corrected Proof, Available online 15 September 2010</br> Dinesh, Kumar , Subhradip, Paul , Ramakrishna V., Hosur</br> Source: Journal of Magnetic Resonance	nmrlearner	Journal club	0	09-16-2010 04:29 PM
[NMR paper] Assignment of the backbone 1H,15N,13C NMR resonances and secondary structure of a dou Assignment of the backbone 1H,15N,13C NMR resonances and secondary structure of a double-stranded RNA binding domain from the Drosophila protein staufen. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Assignment of the backbone 1H,15N,13C NMR resonances and secondary structure of a double-stranded RNA binding domain from the Drosophila protein staufen. FEBS Lett. 1995 Apr 10;362(3):333-6 Authors: Bycroft M, Proctor M, Freund SM, St Johnston D NMR spectroscopy has been...	nmrlearner	Journal club	0	08-22-2010 03:41 AM
[NMR paper] Sequential assignment of the backbone nuclei (1H, 15N and 13C) of c-H-ras p21 (1-166) Sequential assignment of the backbone nuclei (1H, 15N and 13C) of c-H-ras p21 (1-166).GDP using a novel 4D NMR strategy. Related Articles Sequential assignment of the backbone nuclei (1H, 15N and 13C) of c-H-ras p21 (1-166).GDP using a novel 4D NMR strategy. J Biomol NMR. 1992 Nov;2(6):639-46 Authors: Campbell-Burk SL, Domaille PJ, Starovasnik MA, Boucher W, Laue ED The c-H-ras p21 protein is the product of the human ras proto-oncogene, a member of a ubiquitous eukaryotic gene family which is highly conserved in evolution. These proteins play...	nmrlearner	Journal club	0	08-21-2010 11:45 PM
[NMR paper] Assignment of the backbone 1H and 15N NMR resonances of bacteriophage T4 lysozyme. Assignment of the backbone 1H and 15N NMR resonances of bacteriophage T4 lysozyme. Related Articles Assignment of the backbone 1H and 15N NMR resonances of bacteriophage T4 lysozyme. Biochemistry. 1990 Jul 10;29(27):6341-62 Authors: McIntosh LP, Wand AJ, Lowry DF, Redfield AG, Dahlquist FW The proton and nitrogen (15NH-H alpha-H beta) resonances of bacteriophage T4 lysozyme were assigned by 15N-aided 1H NMR. The assignments were directed from the backbone amide 1H-15N nuclei, with the heteronuclear single-multiple-quantum coherence (HSMQC)...	nmrlearner	Journal club	0	08-21-2010 11:04 PM
automated backbone assignment Can anyone suggest me a most commonly used and worthful software for automated backbone assignment of triple labeled proteins. Thanks.	sarun	NMR Questions and Answers	2	03-30-2007 03:21 PM

« Previous Thread | Next Thread »

Posting Rules
You may not post new threads You may not post replies You may not post attachments You may not edit your posts BB code is On Smilies are On [IMG] code is On HTML code is On Trackbacks are Off Pingbacks are Off Refbacks are Off