ArticleProceedings of the National Academy of Sciences of the United States of America2006
Amide vibrations are delocalized across the hydrophobic interface of a transmembrane helix dimer.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
22 citing papers in PubMed.
- Structural Characterization of Fluorescent Proteins Using Tunable Femtosecond Stimulated Raman Spectroscopy.International journal of molecular sciences · 2023Article
- Accelerated Vibrational Energy Relaxation of Water in Alkaline Environments.The journal of physical chemistry. B · 2021Article
- Protein Dynamics by Two-Dimensional Infrared Spectroscopy.Annual review of analytical chemistry (Palo Alto, Calif.) · 2021Article
- Watching Proteins Wiggle: Mapping Structures with Two-Dimensional Infrared Spectroscopy.Chemical reviews · 2017Review
- Infrared and Fluorescence Assessment of Protein Dynamics: From Folding to Function.The journal of physical chemistry. B · 2016Article
- Empirical maps for the calculation of amide I vibrational spectra of proteins from classical molecular dynamics simulations.The journal of physical chemistry. B · 2014Article
- Study of the γD-crystallin protein using two-dimensional infrared (2DIR) spectroscopy: experiment and simulation.The journal of physical chemistry. B · 2013Article
- Three-dimensional structures by two-dimensional vibrational spectroscopy.Accounts of chemical research · 2012Article
- Two-dimensional infrared spectroscopy reveals the complex behaviour of an amyloid fibril inhibitor.Nature chemistry · 2012Article
- Discovery of competing anaerobic and aerobic pathways in umpolung amide synthesis allows for site-selective amide 18O-labeling.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Identification of arginine residues in peptides by 2D-IR echo spectroscopy.The journal of physical chemistry. A · 2011Article
- Residue-specific vibrational echoes yield 3D structures of a transmembrane helix dimer.Science (New York, N.Y.) · 2011Article
- Tidal surge in the M2 proton channel, sensed by 2D IR spectroscopy.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Lipid and peptide dynamics in membranes upon insertion of n-alkyl-beta-D-glucopyranosides.Biophysical journal · 2010Article
- 2D IR provides evidence for mobile water molecules in beta-amyloid fibrils.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- Applications of 2D IR spectroscopy to peptides, proteins, and hydrogen-bond dynamics.The journal of physical chemistry. B · 2009Article
- Gating mechanism of the influenza A M2 channel revealed by 1D and 2D IR spectroscopies.Structure (London, England : 1993) · 2009Article
- The Davydov/Scott model for energy storage and transport in proteins.Journal of biological physics · 2009Article
- Empirical amide I vibrational frequency map: application to 2D-IR line shapes for isotope-edited membrane peptide bundles.The journal of physical chemistry. B · 2009Review
- Effects of Salts of the Hofmeister Series on the Hydrogen Bond Network of Water.Journal of molecular liquids · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
The tertiary interactions between amide-I vibrators on the separate helices of transmembrane helix dimers were probed by ultrafast 2D vibrational photon echo spectroscopy. The 2D IR approach proves to be a useful structural method for the study of membrane-bound structures. The 27-residue human erythrocyte protein Glycophorin A transmembrane peptide sequence: KKITLIIFG(79)VMAGVIGTILLISWG(94)IKK was labeled at G(79) and G(94) with (13)C=(16)O or (13)C=(18)O. The isotopomers and their 50:50 mixtures formed helical dimers in SDS micelles whose 2D IR spectra showed components from homodimers when both helices had either (13)C=(16)O or (13)C=(18)O substitution and a heterodimer when one had (13)C=(16)O substitution and the other had (13)C=(18)O substitution. The cross-peaks in the pure heterodimer 2D IR difference spectrum and the splitting of the homodimer peaks in the linear IR spectrum show that the amide-I mode is delocalized across a pair of helices. The excitation exchange coupling in the range 4.3-6.3 cm(-1) arises from through-space interactions between amide units on different helices. The angle between the two Gly(79) amide-I transition dipoles, estimated at 103 degrees from linear IR spectroscopy and 110 degrees from 2D IR spectroscopy, combined with the coupling led to a structural picture of the hydrophobic interface that is remarkably consistent with results from NMR on helix dimers. The helix crossing angle in SDS is estimated at 45 degrees. Two-dimensional IR spectroscopy also sets limits on the range of geometrical parameters for the helix dimers from an analysis of the coupling constant distribution.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.