Primary Structure Effects on Peptide Group Hydrogen Exchange
TLDR
The results provide the information necessary to evaluate measured protein NH to ND exchange rates by comparing them with rates to be expected for the same amino acid sequence is unstructured aligo‐ and polypeptides.Abstract:
The rate of exchange of peptide group NH hydrogens with the hydrogens of aqueous solvent is sensitive to neighboring side chains. To evaluate the effects of protein side chains, all 20 naturally occurring amino acids were studied using dipeptide models. Both inductive and steric blocking effects are apparent. The additivity of nearest-neighbor blocking and inductive effects was tested in oligo- and polypeptides and, surprisingly, confirmed. Reference rates for alanine-containing peptides were determined and effects of temperature considered. These results provide the information necessary to evaluate measured protein NH to ND exchange rates by comparing them with rates to be expected for the same amino acid sequence is unstructured oligo- and polypeptides. The application of this approach to protein studies is discussed.read more
Citations
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Journal ArticleDOI
The origins of enhanced activity in factor VIIa analogs and the interplay between key allosteric sites revealed by hydrogen exchange mass spectrometry.
Kasper D. Rand,Kasper D. Rand,Mette Dahl Andersen,Ole Hvilsted Olsen,Thomas J. D. Jørgensen,Henrik Østergaard,Ole N. Jensen,Henning R. Stennicke,Egon Persson +8 more
TL;DR: Results reveal the delicate interplay between key allosteric sites necessary to achieve the transition of FVIIa into the active form and imply that enhanced catalytic efficiency was attained by two different mechanisms.
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Hydrogen exchange study of canine milk lysozyme: stabilization mechanism of the molten globule.
Yoshihiro Kobashigawa,Makoto Demura,Takumi Koshiba,Yasuhiro Kumaki,Kunihiro Kuwajima,Katsutoshi Nitta +5 more
TL;DR: Study of the molten globules of α‐lactalbumin and equine milk lysozyme showed that the stabilities of their α‐helices are similar, despite the differences in the thermodynamic stability of their molten globule states, which underscores the importance of the cooperative interaction in the stability of the lava globule state.
Journal ArticleDOI
HX-ESI-MS and optical studies of the unfolding of thioredoxin indicate stabilization of a partially unfolded, aggregation-competent intermediate at low pH.
TL;DR: Hydrogen exchange monitored by mass spectrometry (HX-MS), in conjunction with multiple optical probes, has been used to characterize the unfolding of thioredoxin and it is shown that transient aggregation of this intermediate results in a deceleration of the kinetics of unfolding at high protein concentrations at pH 3 but not at pH 7.
Journal ArticleDOI
Local interactions in a Schellman motif dictate interhelical arrangement in a protein fragment
TL;DR: Absence of helix termination in trifluoroethanol, a solvent known to disrupt hydrophobic interactions, along with an analysis of H alpha chemical shifts and NOEs in the variant peptides suggest a major role for glycine in terminating the helix, with local hydrophilic interactions further stabilizing the Schellman motif.
Journal ArticleDOI
Analysis of the solution structure of the homeodomain of rat thyroid transcription factor 1 by 1H-NMR spectroscopy and restrained molecular mechanics.
Gennaro Esposito,Federico Fogolari,Giuseppe Damante,Silvestro Formisano,Gianluca Tell,Antonio Leonardi,Roberto Di Lauro,Paolo Viglino +7 more
TL;DR: The solution structure of the rat thyroid transcription factor 1 (TTF-1) homeodomain has been elucidated by 1H-NMR and restrained modeling and the C-terminal extension of helix III appears structured, albeit not as rigidly as the preceding portion.
References
More filters
Journal ArticleDOI
MLEV-17-based two-dimensional homonuclear magnetization transfer spectroscopy
Ad Bax,Donald G. Davis +1 more
TL;DR: In this article, a new mixing scheme based on the MLEV-16 composite pulse decoupling cycle (II) was proposed, which is less sensitive to pulse imperfections and provides net magnetization transfer over a substantial bandwidth with only limited rf power.
Journal ArticleDOI
Coherence transfer by isotropic mixing: Application to proton correlation spectroscopy
Journal ArticleDOI
Use of glass electrodes to measure acidities in deuterium oxide1,2
Paul K. Glasoe,F. A. Long +1 more
TL;DR: In this article, a pH meter reading in D/sub 2/O solutions was 0-40 pH unit lower than in H/sub O solutions, attributed to the glass electrode.
Journal ArticleDOI
Dithiothreitol, a New Protective Reagent for SH Groups*
TL;DR: Strominger, J. L. H. (1960), Instruction Manual and Handbook, Beckman/Spinco Model 120 Amino Acid Analyzer, Palo Alto, California,Beckman Instruments Inc., Spinco Division.
Journal ArticleDOI
A two-dimensional nuclear overhauser enhancement (2d noe) experiment for the elucidation of complete proton-proton cross-relaxation networks in biological macromolecules
TL;DR: The 2D NOE experiment has the principal advantage that it avoids detrimental effects arising from the limited selectivity of preirradiation in crowded spectral regions, and yields with a single instrument setting a complete network of NOE's between all the protons in the macromolecule.
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