NMR paper Local structure propensities in disordered proteins from cross-correlated NMR spin relaxation

		BioNMR > Educational resources > Journal club
[NMR paper] Local structure propensities in disordered proteins from cross-correlated NMR spin relaxation

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:

View First Unread

Thread Tools

Search this Thread

Rate Thread

Display Modes

Yesterday, 07:10 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,875

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

Local structure propensities in disordered proteins from cross-correlated NMR spin relaxation

Local structure propensities in disordered proteins from cross-correlated NMR spin relaxation

Structurally diverse ensembles of intrinsically disordered proteins or regions are difficult to determine, because experimental observables usually report a conformational average. Therefore, in order to infer the underlying distribution, a set of experiments that measure different aspects of the system is necessary. In principle, there exists a set of cross-correlated relaxation (CCR) rates that report on protein backbone geometry in a complementary way. However, CCR rates are hard to...

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Local structure propensities in disordered proteins from cross-correlated NMR spin relaxation Local structure propensities in disordered proteins from cross-correlated NMR spin relaxation Abstract Structurally diverse ensembles of intrinsically disordered proteins or regions are difficult to determine, because experimental observables usually report a conformational average. Therefore, in order to infer the underlying distribution, a set of experiments that measure different aspects of the system is necessary. In principle, there exists a set of cross-correlated relaxation (CCR) rates that report on protein backbone geometry in a complementary...	nmrlearner	Journal club	0	Yesterday 07:10 PM
Resonance assignment of disordered protein with repetitive and overlapping sequence using combinatorial approach reveals initial structural propensities and local restrictions in the denatured state Resonance assignment of disordered protein with repetitive and overlapping sequence using combinatorial approach reveals initial structural propensities and local restrictions in the denatured state Abstract NMR resonance assignment of intrinsically disordered proteins poses a challenge because of the limited dispersion of amide proton chemical shifts. This becomes even more complex with the increase in the size of the system. Residue specific selective labeling/unlabeling experiments have been used to resolve the overlap, but require multiple sample...	nmrlearner	Journal club	0	09-02-2016 09:36 AM
Cross-correlated relaxation measurements under adiabatic sweeps: determination of local order in proteins Cross-correlated relaxation measurements under adiabatic sweeps: determination of local order in proteins Abstract Adiabatically swept pulses were originally designed for the purpose of broadband spin inversion. Later, unexpected advantages of their utilization were also found in other applications, such as refocusing to excite spin echoes, studies of chemical exchange or fragment-based drug design. Here, we present new experiments to characterize fast (psâ??ns) protein dynamics, which benefit from little-known properties of adiabatic pulses. We...	nmrlearner	Journal club	0	10-28-2015 05:05 PM
[NMR paper] Probing Local Backbone Geometries in Intrinsically Disordered Proteins by Cross-Correlated NMR Relaxation. Probing Local Backbone Geometries in Intrinsically Disordered Proteins by Cross-Correlated NMR Relaxation. Probing Local Backbone Geometries in Intrinsically Disordered Proteins by Cross-Correlated NMR Relaxation. Angew Chem Int Ed Engl. 2013 Mar 20; Authors: Stanek J, Saxena S, Geist L, Konrat R, Ko?mi?ski W Abstract Ab ultra-high-resolution NMR experiment for the measurement of intraresidue (1) H(i)-(15) N(i)-(13) C'(i) dipolar-chemical shift anisotropy relaxation interference is employed to extract information about local backbone...	nmrlearner	Journal club	0	03-23-2013 06:36 PM
Full relaxation matrix analysis of apparent cross-correlated relaxation rates in four-spin systems Full relaxation matrix analysis of apparent cross-correlated relaxation rates in four-spin systems January 2013 Publication year: 2013 Source:Journal of Magnetic Resonance, Volume 226</br> </br> Cross-correlated relaxation (CCR) rates are an established tool for the extraction of relative bond orientations in biomolecules in solution. CCR between dipolar interactions in four-spin systems is a particularly well-suited mechanism. In this paper, a simple approach to analyze systematic experimental errors is formulated in a subspace of the complete four-spin Hilbert space....	nmrlearner	Journal club	0	12-15-2012 09:51 AM
Full relaxation matrix analysis of apparent cross-correlated relaxation rates in four-spin systems Full relaxation matrix analysis of apparent cross-correlated relaxation rates in four-spin systems Available online 12 November 2012 Publication year: 2012 Source:Journal of Magnetic Resonance</br> </br> Cross-correlated relaxation (CCR) rates are an established tool for the extraction of relative bond orientations in biomolecules in solution. CCR between dipolar interactions in four-spin systems is a particularly well-suited mechanism. In this paper, a simple approach to analyze systematic experimental errors is formulated in a subspace of the complete four-spin...	nmrlearner	Journal club	0	12-01-2012 06:10 PM
Full relaxation matrix analysis of apparent cross-correlated relaxation rates in four-spin systems Full relaxation matrix analysis of apparent cross-correlated relaxation rates in four-spin systems Publication year: 2012 Source:Journal of Magnetic Resonance</br> Beat Vögeli</br> Cross-correlated relaxation (CCR) rates are an established tool for the extraction of relative bond orientations in biomolecules in solution. CCR between dipolar interactions in four-spin systems is a particularly well-suited mechanism. In this paper, a simple approach to analyze systematic experimental errors is formulated in a subspace of the complete four-spin Hilbert space. It is shown...	nmrlearner	Journal club	0	11-13-2012 07:30 AM
[NMR paper] Application of cross-correlated NMR spin relaxation to the zinc-finger protein CRP2(L Application of cross-correlated NMR spin relaxation to the zinc-finger protein CRP2(LIM2): evidence for collective motions in LIM domains. Related Articles Application of cross-correlated NMR spin relaxation to the zinc-finger protein CRP2(LIM2): evidence for collective motions in LIM domains. Biochemistry. 2001 Aug 14;40(32):9596-604 Authors: Schüler W, Kloiber K, Matt T, Bister K, Konrat R The solution structure of quail CRP2(LIM2) was significantly improved by using an increased number of NOE constraints obtained from a 13C,15N-labeled...	nmrlearner	Journal club	0	11-19-2010 08:44 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