Question from NMRWiki Q&A forum how many percent peak in NH HSQC enough to solve structure?

		BioNMR > NMR community > News from other NMR forums
[Question from NMRWiki Q&A forum] how many percent peak in NH HSQC enough to solve structure?

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

01-15-2015, 04:31 AM

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

how many percent peak in NH HSQC enough to solve structure?

how many percent peak in NH HSQC enough to solve structure?

Hello everyone, I have a stupid question and often confuse me. We often meet peak missing in 15N H HSQC,but usually how many percent peak enough to solve NMR solution structure? I ask a lot of people and check in literature. Some guy suggested at least 80 except proline, other answer is at least 90%?For my current project, only appear 80% peak except proline. Now I am trying to optimize sample condition to make more peak. But I need to know a percent that I must optimize for my sample peak. Check my biology result I know that most missing peak lie in a very important disorder, which play an important function role. May I have a understand, If we can check missing peak. If miss peak have no important function, we don't care and directly to assign other peak and solve structure. If missing peak have function, it is a totally different condition. For my protein, If I can't make the disorder(misssing peak), I will not get the correct structure. Thanks a lot!

Chengkun Wang

Check if somebody has answered this question on NMRWiki QA forum

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Scientists Solve High-Resolution Structure of TSPO Molecular Transporter - AZoNano.com <img alt="" height="1" width="1" /> Scientists Solve High-Resolution Structure of TSPO Molecular Transporter AZoNano.com This difficult task is carried out by a molecular transport protein named TSPO in the outer mitochondrial membrane. Using nuclear magnetic resonance spectroscopy, two teams working with the GÃ¶ttingen-based scientists Markus Zweckstetter and Stefan ... Scientists Solve High-Resolution Structure of TSPO Molecular Transporter - AZoNano.com More...	nmrlearner	Online News	0	03-24-2014 11:08 PM
1H-15N HSQC, edited by a 1H inversion recovery and observed in the antiphase component (IR-HSQC-AP) Could someone explain the experimental theory/basis behind 1H-15N inversion recovery filtered HSQC experiment observed in antiphase (IR-HSQC-AP)? I am still learning basic NMR theory, but would like to know about this particular experiment, which was used to detect paramagnetically broadened backbone resonances. Thanks. Abstract Biogenesis of iron–sulfur cluster proteins is a highly regulated process that requires complex protein machineries. In the cytosolic iron–sulfur protein assembly machinery, two human key proteins—NADPH-dependent diflavin oxidoreductase 1 (Ndor1) and...	talderson	NMR Questions and Answers	0	09-23-2013 06:01 AM
[NMR images] Let's go through the steps you should take to solve any NMR structure ... http://50.57.82.128/sites/default/files/userfiles/48/uploaded_images/nmr%20q3.png www.mendelset.com 18/06/2013 7:23:35 AM GMT Let's go through the steps you should take to solve any NMR structure ... More...	nmrlearner	NMR pictures	0	06-18-2013 07:57 PM
[NMR images] Let's solve this NMR structure elucidation problem using steps similar ... http://50.57.82.128/sites/default/files/userfiles/48/uploaded_images/redox%20q5.png www.mendelset.com 18/06/2013 7:23:35 AM GMT Let's solve this NMR structure elucidation problem using steps similar ... More...	nmrlearner	NMR pictures	0	06-18-2013 07:21 AM
Researchers solve complete 3-D structure of E6 proteins in HPV 16 - News-Medical.net Researchers solve complete 3-D structure of E6 proteins in HPV 16 - News-Medical.net <img alt="" height="1" width="1" /> Researchers solve complete 3-D structure of E6 proteins in HPV 16 News-Medical.net Success depended on two factors: the development of methods for isolating protein E6 as well as the use of nuclear magnetic resonance (NMR) and crystallography techniques. Having dealt with various aggregation and purification problems, the researchers ... and more » Read here	nmrlearner	Online News	0	02-16-2013 05:53 AM
[Question from NMRWiki Q&A forum] peak missing in nh hsqc protein nmr peak missing in nh hsqc protein nmr Dear NMR wikiers iam assigning 95 aminoacid residue protein . i can see 76 cross peaks in hsqc on 700 vnmr cryob . still some peaks are missing . i tried at modified ph conditions , buffer ionic strength and d2o percentage ( 5 to 10 percent ).but no significant improvement is their any experment to get best number of cross peaks in hsqc ?	nmrlearner	News from other NMR forums	0	06-28-2011 04:40 PM
[NMR paper] Automated peak picking and peak integration in macromolecular NMR spectra using AUTOP Automated peak picking and peak integration in macromolecular NMR spectra using AUTOPSY. Related Articles Automated peak picking and peak integration in macromolecular NMR spectra using AUTOPSY. J Magn Reson. 1998 Dec;135(2):288-97 Authors: Koradi R, Billeter M, Engeli M, Güntert P, Wüthrich K A new approach for automated peak picking of multidimensional protein NMR spectra with strong overlap is introduced, which makes use of the program AUTOPSY (automated peak picking for NMR spectroscopy). The main elements of this program are a novel...	nmrlearner	Journal club	0	11-17-2010 11:15 PM
[NMR paper] Use of proline mutants to help solve the NMR solution structure of type III antifreez Use of proline mutants to help solve the NMR solution structure of type III antifreeze protein. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Use of proline mutants to help solve the NMR solution structure of type III antifreeze protein. Protein Sci. 1993 Sep;2(9):1411-28 Authors: Chao H, Davies PL, Sykes BD, SÃ¶nnichsen FD...	nmrlearner	Journal club	0	08-22-2010 03:01 AM

« 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