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
More filters
Journal ArticleDOI
Hydrogen bonding in helical polypeptides from molecular dynamics simulations and amide hydrogen exchange analysis: alamethicin and melittin in methanol.
TL;DR: With suitable conditions, local hydrogen-bonded secondary structure in helical peptides may be predicted from dynamics simulations from alpha-helical starting structures, and is promising for simulations on extended timescales to characterize the nature of the backbone fluctuations that underlie amide exchange from isolated helical polypeptides.
Journal ArticleDOI
Structural characterisation and comparison of the native and A-states of equine lysozyme
Ludmilla A. Morozova-Roche,Christopher C. Arico-Muendel,Donald T. Haynie,V I Emelyanenko,H. Van Dael,Christopher M. Dobson +5 more
TL;DR: A-state equine lysozyme has been found to be globally much less ordered than the A-state of native equine Lysozyme as discussed by the authors, and the side chains of these residues form a hydrophobic cluster that includes five aromatic residues.
Journal ArticleDOI
Investigating solution-phase protein structure and dynamics by hydrogen exchange mass spectrometry.
TL;DR: In this unit, hydrogen exchange theory is discussed as it applies to Hx‐MS protocols, the practice of HX‐MS including data analysis and interpretation is explained in detail, and recent advancements in technology which greatly increase the depth of information gained from the technique are highlighted.
Journal ArticleDOI
Characterization of the free energy spectrum of peptostreptococcal protein L
TL;DR: For protein L under native conditions, there do not appear to be partially folded states with free energies intermediate between that of the folded and unfolded states.
Book ChapterDOI
NMR Methods for the Study of Instrinsically Disordered Proteins Structure, Dynamics, and Interactions: General Overview and Practical Guidelines
Bernhard Brutscher,Isabella C. Felli,Sergio Gil-Caballero,Tomáš Hošek,Rainer Kümmerle,Alessandro Piai,Roberta Pierattelli,Zsofia Solyom +7 more
TL;DR: Basic NMR concepts are presented, as well as optimised tools available for the study of IDPs in solution, that are optimized for the particular chemical and spectroscopic properties of these molecules.
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.
Related Papers (5)
Hydrogen exchange and structural dynamics of proteins and nucleic acids
Determination of amide hydrogen exchange by mass spectrometry: A new tool for protein structure elucidation
Zhongqi Zhang,David L. Smith +1 more