Related ArticlesNMR-Directed Design of PreTCR? and pMHC Molecules Implies a Distinct Geometry for preTCR Relative to ??TCR Recognition of pMHC.
J Biol Chem. 2017 Nov 03;:
Authors: Mallis RJ, Arthanari H, Lang MJ, Reinherz EL, Wagner G
Abstract
The pre-T cell receptor (preTCR) guides early thymocytes through maturation processes within the thymus via interaction with self ligands displayed on thymic epithelial cells. The preTCR is a disulfide-linked heterodimer composed of an invariant preT? (pT?) subunit and a variable ? subunit, the latter of which is incorporated into the mature T cell receptor (TCR) in subsequent developmental progression. This interaction of preTCR with peptide-major histocompatibility complex molecules (pMHC) has recently been shown to drive robust preTCR signaling and thymocyte maturation. While the native sequences of ? are properly folded and are suitable for NMR studies in isolation, a tendency to self-associate rendered binding studies with physiological ligands difficult to interpret. Consequently, in order to structurally define this critical interaction, we have re-engineered the extracellular regions of ?, designated as ?-c1, for prokaryotic production to be used in NMR spectroscopy. Given the large size of the full extracellular domain of class I MHC molecules such as H-Kb, we produced a truncated form termed Kb-t harboring properties favorable for NMR measurements. This system has enabled robust measurement of a preTCR-pMHC interaction directly analogous to that of TCR??-pMHC. Binding surface analysis identified a contact surface comparable in size to that of the TCR??-pMHC but potentially with a rather distinct binding orientation. A tilting of the preTCR? when bound to pMHC ligand recognition surface versus the upright orientation of TCR?? would alter the direction of force application between preTCR and TCR mechanosensors, impacting signal initiation.
PMID: 29101227 [PubMed - as supplied by publisher]
Ensembles of a small number of conformations with relative populations
Ensembles of a small number of conformations with relative populations
Abstract
In our previous work, we proposed a new way to represent protein native states, using ensembles of a small number of conformations with relative Populations, or ESP in short. Using Ubiquitin as an example, we showed that using a small number of conformations could greatly reduce the potential of overfitting and assigning relative populations to protein ensembles could significantly improve their quality. To demonstrate that ESP indeed is an excellent alternative to...
nmrlearner
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10-17-2015 03:40 PM
[Question from NMRWiki Q&A forum] Relative quantification (residual solvents)
Relative quantification (residual solvents)
Hi All,
I've been trying to get a clear answer to this question for a while now, but can't seem to get a definitive answer. My approach is following the method described in "Practical NMR for organic chemists" by John Hollerton and Steve Richards. I don't take any issue with this method, by only problem is that it gives a WILDLY different answer to the one I obtain when I do NMR quantification in TopSpin... this is a big problem, since often we are interested in the % of unwanted molecules in our samples.
Let me give you a simplified...
nmrlearner
News from other NMR forums
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10-31-2013 12:05 AM
[NMR paper] Protein-Carbohydrate Interactions Studied by NMR. from Molecular Recognition to Drug Design.
Protein-Carbohydrate Interactions Studied by NMR. from Molecular Recognition to Drug Design.
Related Articles Protein-Carbohydrate Interactions Studied by NMR. from Molecular Recognition to Drug Design.
Curr Protein Pept Sci. 2012 Dec 10;
Authors: Fernandez-Alonso MD, Diaz D, Berbis MA, Marcelo F, Jimenez-Barbero J
Abstract
Diseases that result from infection are, in general, a consequence of specific interactions between a pathogenic organism and the cells. The study of host-pathogen interactions has provided insights for the design of...
nmrlearner
Journal club
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02-03-2013 10:22 AM
Diffusivitaet Relative Anisotropie.jpg
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nmrlearner
NMR pictures
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01-03-2012 01:42 PM
[NMR paper] Design of a functional protein for molecular recognition: specificity of ligand bindi
Design of a functional protein for molecular recognition: specificity of ligand binding in a metal-assembled protein cavity probed by 19f NMR.
Related Articles Design of a functional protein for molecular recognition: specificity of ligand binding in a metal-assembled protein cavity probed by 19f NMR.
J Am Chem Soc. 2004 Apr 7;126(13):4192-8
Authors: Doerr AJ, Case MA, Pelczer I, McLendon GL
A metal-assembled homotrimeric coiled coil based on the GCN4-p1 sequence has been designed that noncovalently binds hexafluorobenzene and other similar...
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11-24-2010 09:51 PM
[NMR paper] Water molecules in DNA recognition I: hydration lifetimes of trp operator DNA in solu
Water molecules in DNA recognition I: hydration lifetimes of trp operator DNA in solution measured by NMR spectroscopy.
Related Articles Water molecules in DNA recognition I: hydration lifetimes of trp operator DNA in solution measured by NMR spectroscopy.
J Mol Biol. 1998 Oct 2;282(4):847-58
Authors: Sunnerhagen M, Denisov VP, Venu K, Bonvin AM, Carey J, Halle B, Otting G
The present NMR study investigates the residence times of the hydration water molecules associated with uncomplexed trp operator DNA in solution by measuring intermolecular...
nmrlearner
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11-17-2010 11:15 PM
[U. of Ottawa NMR Facility Blog] E.COSY and the Relative Signs of Coupling Constants
E.COSY and the Relative Signs of Coupling Constants
Spin-spin coupling constants can have values greater than or less than zero. The absolute sign of the coupling constants cannot be discerned from the simple examination of a 1H NMR spectrum. The E.COSY1 (Exclusive COrrelation SpectroscopY) technique is one method which can be used to determine the relative signs of coupling constants. E.COSY is a phase sensitive COSY variant which produces off-diagonal signals showing only the active coupling (i.e. the coupling directly responsible for the cross-peak) as 2x2 antiphase square tetrads...
nmrlearner
News from NMR blogs
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08-21-2010 08:15 PM
[Stan NMR blog] Geometry of the AB quadruplet
Geometry of the AB quadruplet
This is the opening article of a series entitled 'Know Thy Spins'.
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