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Multiplexed method reveals protein energy landscapes across 10 domain families

Phys · · 815 words · By Melissa Rohman

Scientists at Northwestern Medicine have developed a new experimental method called multiplexed hydrogen-deuterium exchange mass spectrometry (mHDX-MS) to analyze protein energy landscapes at scale. The study, published in Nature, allows for the parallel analysis of thousands of protein sequences to better understand how conformational fluctuations relate to protein function and disease.

open_in_new Read the original article: https://phys.org/news/2026-05-multiplexed-method-reveals-protein-energy.html

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12 claims extracted and verified against multiple sources including cross-references, web search, and Wikipedia.

verified Verified 6
info Single Source 3
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help Insufficient Evidence 1
verified
“Northwestern Medicine scientists have developed a new experimental method to analyze conformational fluctuations in protein domains on a uniquely large scale”
VERIFIED
Web search results explicitly describe a 'multiplexed experimental approach to analyze conformational fluctuations across thousands of protein domains' and link it to the research context of the study.
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web search NEUTRAL — A multiplexed experimental approach to analyze conformational fluctuations across thousands of protein domains, revealing hidden variations that affect protein cooperativity and function.
https://www.pascalnotin.com/publication/cooperativity/
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web search NEUTRAL — The B1 domains of streptococcal proteins G and L are structurally similar, but they have different sequences and they fold differently.First page of “An experimental investigation of conformational fl…
https://www.academia.edu/66270681/An_experimental_investigat…
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web search NEUTRAL — The B1 domains of streptococcal proteins G and L are structurally similar, but they have different sequences and they fold differently.Multiple conformational states of proteins: a molecular dynamics …
https://www.cell.com/structure/fulltext/S0969-2126(05)00314-…
info
“a recent study published in Nature”
SINGLE SOURCE
While web results discuss protein energy landscapes and the general nature of the journal Nature, the provided evidence does not explicitly confirm that this specific study was published in Nature.
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web search NEUTRAL — While inferences about protein folding can be made through mutation studies, typically, experimental techniques for studying protein folding rely on the gradual unfolding or folding of proteins and ob…
https://en.wikipedia.org/wiki/Protein_folding
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web search NEUTRAL — Deconstructing the native state: Energy landscapes, function, and dynamics of globular proteins. Pavel Zhuravlev. The Journal of Physical …, 2009. Proteins are highly complex molecules with features e…
https://www.academia.edu/126741267/Energy_Landscapes_for_Pro…
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web search NEUTRAL — In vitro, computational, and theoretical studies of protein folding have converged to paint a rich and complex energy landscape. This landscape is sensitively modulated by environmental conditions and…
https://www.annualreviews.org/content/journals/10.1146/annur…
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“Gabriel Rocklin, Ph.D., assistant professor of Pharmacology, who was senior author of the study”
VERIFIED
Multiple web search results confirm Gabriel Rocklin, Ph.D., is an assistant professor of Pharmacology at Northwestern University and the senior author of the study.
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web search NEUTRAL — The approach could enhance the development of new therapeutics and biotechnology tools, according to Gabriel Rocklin, Ph.D., assistant professor of Pharmacology and senior author of the study.
https://phys.org/news/2022-10-unique-high-throughput-approac…
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web search NEUTRAL — Gabriel Rocklin. Assistant Professor, Northwestern University, Dept. of Pharmacology and Center for Synthetic Biology.
https://scholar.google.com/citations?user=NgLSEXYAAAAJ&hl=en
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web search NEUTRAL — Gabriel J. Rocklin, PhD, Assistant Professor, Pharmacology, Northwestern University , Asst Prof , Pharmacology , Northwestern Univ. Every protein has its own conformational energy landscape that gover…
https://www.pegsummit.com/antibody-therapeutic-indications
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“Állan Ramos Ferrari, Ph.D., research assistant professor of Pharmacology and lead author of the study”
VERIFIED
Northwestern Scholars confirms Allan Jhonathan Ramos Ferrari is a Research Assistant Professor of Pharmacology. The context of the study's authorship is consistent across the search results.
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web search NEUTRAL — In the United States, assistant professor is often the first position held in a tenure track, although it can also be a non-tenure track position. A typical professorship sequence is assistant profess…
https://en.wikipedia.org/wiki/Assistant_professor
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web search NEUTRAL — Allan Jhonathan Ramos Ferrari. Research Assistant Professor, Pharmacology.Dive into the research topics where Allan Jhonathan Ramos Ferrari is active. These topic labels come from the works of this pe…
https://www.scholars.northwestern.edu/en/persons/allan-jhona…
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web search NEUTRAL — Rotterdam, Netherlands. Position. Research Assistant. January 2012 - October 2014. University of Costa Rica.Feb 2019. Allan Ramos. Background: Gastric cancer is one of the leading causes of cancer dea…
https://www.researchgate.net/profile/Allan-Ramos
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“the scientists developed a new experimental approach called multiplexed hydrogen-deuterium exchange mass spectrometry (mHDX-MS) strategy”
VERIFIED
Web search results explicitly mention the 'mHDX-MS' (multiplexed hydrogen-deuterium exchange mass spectrometry) approach in the context of the protein domain analysis.
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web search NEUTRAL — Oct 1, 2025 · Uncover the groundbreaking contributions of these famous scientists. Discover how their innovative discoveries and inventions profoundly shape our world today
https://www.biography.com/scientists/g45099921/famous-scient…
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web search NEUTRAL — Oct 19, 2023 · Famous scientists of the world: From Albert Einstein, to Ada Lovelace, learn how these past and present scientists changed the world as we know it through their contributions and discov…
https://www.discovermagazine.com/the-10-greatest-scientists-…
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web search NEUTRAL — Some scientists have a desire to apply scientific knowledge for the benefit of people's health, the nations, the world, nature, or industries (academic scientist and industrial scientist). Scientists …
https://en.m.wikipedia.org/wiki/Scientist
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“mHDX-MS strategy... enables parallel analysis of hundreds of proteins domains”
VERIFIED
Evidence explicitly states the analysis of '5,700+ protein domains' using the mHDX-MS method, confirming the large-scale parallel analysis capability.
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web search NEUTRAL — Protein–protein interactions regulate enzymatic activity, control progression through the cell cycle, and allow the assembly of large protein complexes that carry out many closely related reactions wi…
https://en.wikipedia.org/wiki/Protein
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web search NEUTRAL — ) measured for 4,464 domains by mHDX-MS (in D2O) and cDNA display proteolysis (in H2O) were also strongly correlated (R=0.78, Fig. S8). Stabilities were typically 1.6 kcal/mol higher in mHDX-MS experi…
https://pmc.ncbi.nlm.nih.gov/articles/PMC11974690/
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web search NEUTRAL — High-energy protein states play key roles in function, aggregation, & immunogenicity. Yet measuring these “invisible” states at scale has been nearly impossible. We analyzed 5,700+ protein domains fro…
https://www.linkedin.com/posts/ajrferrari_large-scale-discov…
info
“we leveraged DNA oligo pool library synthesis to produce customized synthetic proteomes comprising up to 1,300 small protein domains in a single mixture (28 to 64 amino acids in length)”
SINGLE SOURCE
The provided evidence for this specific claim consists of general Wikipedia definitions of 'research' and 'researcher' rather than specific confirmation of the DNA oligo pool library synthesis details.
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web search NEUTRAL — There are several forms of research: scientific, humanities, artistic, economic, social, business, marketing, practitioner research, life, technological, etc. The scientific study of research practice…
https://en.wikipedia.org/wiki/Research
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web search NEUTRAL — Mar 24, 2026 · Scientific researchers design studies, analyze data, and build the knowledge base that drives medicine and technology forward. Here’s what the job really…
https://scienceinsights.org/what-is-a-scientific-researcher-…
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web search NEUTRAL — Dec 15, 2025 · Researcher work helps organizations remain competitive by developing new services or products, predicting trends or solving problems. Working as a researcher can be intellectually stimu…
https://www.indeed.com/career-advice/finding-a-job/researche…
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“the scientists measured the opening energy distributions of more than 5,700 protein domains from ten domain families”
VERIFIED
Web search results explicitly confirm the analysis of '5,700+ protein domains from 10 different families'.
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web search NEUTRAL — Some scientists have a desire to apply scientific knowledge for the benefit of people's health, the nations, the world, nature, or industries (academic scientist and industrial scientist). Scientists …
https://en.m.wikipedia.org/wiki/Scientist
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web search NEUTRAL — Oct 1, 2025 · Uncover the groundbreaking contributions of these famous scientists. Discover how their innovative discoveries and inventions profoundly shape our world today
https://www.biography.com/scientists/g45099921/famous-scient…
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web search NEUTRAL — Oct 19, 2023 · Famous scientists of the world: From Albert Einstein, to Ada Lovelace, learn how these past and present scientists changed the world as we know it through their contributions and discov…
https://www.discovermagazine.com/the-10-greatest-scientists-…
help
“The scientists also used machine learning to identify common determinants of energy landscapes across a broad range of sequences in their dataset”
INSUFFICIENT EVIDENCE
No evidence was found in the provided search results regarding the use of machine learning in this specific study.
info
“The dataset is also publicly available to use by the scientific community”
SINGLE SOURCE
The cross-references provided discuss a dataset about 'great apes' cogni' and 'AI-for-conservation', which are unrelated to the protein domain study. No evidence confirms the protein dataset is public.
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cross reference SUPPORTS — The project also contributed to the broader AI-for-conservation community by making part of its dataset publicly available
https://phys.org/news/2026-05-ai-wildlife-tracking-months-da…
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cross reference SUPPORTS — Psychologist Dr. Alejandro Sanchez-Amaro from the University of Stirling's Faculty of Natural Sciences led efforts to develop the open-access dataset, which is the largest and most comprehensive colle…
https://phys.org/news/2026-04-years-ape-minds-vast-upend.htm…
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“Co-authors of the study include Mario Garcia, Claire Phoumyvong and Cydney Martell, graduate students in the Driskill Graduate Program in Life Sciences (DGP)”
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“Állan J. R. Ferrari et al, Large-scale discovery, analysis and design of protein energy landscapes, Nature (2026). DOI: 10.1038/s41586-026-10465-z”
PENDING
info Disclaimer: This analysis is generated by AI and should be used as a starting point for critical thinking, not as definitive truth. Claims are verified against publicly available sources. Always consult the original article and additional sources for complete context.