Diego U Ferreiro
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Explore the profile of Diego U Ferreiro including associated specialties, affiliations and a list of published articles.
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53
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1404
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Recent Articles
1.
Parra R, Komives E, Wolynes P, Ferreiro D
ArXiv
. 2025 Feb;
PMID: 39975445
Molecules provide the ultimate language in terms of which physiology and pathology must be understood. Myriads of proteins participate in elaborate networks of interactions and perform chemical activities coordinating the...
2.
Galpern E, Jaafari H, Bueno C, Wolynes P, Ferreiro D
Proc Natl Acad Sci U S A
. 2024 Jul;
121(28):e2400151121.
PMID: 38954548
Protein folding and evolution are intimately linked phenomena. Here, we revisit the concept of exons as potential protein folding modules across a set of 38 abundant and conserved protein families....
3.
Sanchez I, Galpern E, Ferreiro D
Proc Natl Acad Sci U S A
. 2024 May;
121(21):e2318905121.
PMID: 38739787
We propose that spontaneous folding and molecular evolution of biopolymers are two universal aspects that must concur for life to happen. These aspects are fundamentally related to the chemical composition...
4.
Parra R, Freiberger M, Poley-Gil M, Fernandez-Martin M, Radusky L, Ruiz-Serra V, et al.
Nucleic Acids Res
. 2024 Apr;
52(W1):W233-W237.
PMID: 38587198
According to the Principle of Minimal Frustration, folded proteins can only have a minimal number of strong energetic conflicts in their native states. However, not all interactions are energetically optimized...
5.
Freiberger M, Ruiz-Serra V, Pontes C, Romero-Durana M, Galaz-Davison P, Ramirez-Sarmiento C, et al.
Nat Commun
. 2023 Dec;
14(1):8379.
PMID: 38104123
Energetic local frustration offers a biophysical perspective to interpret the effects of sequence variability on protein families. Here we present a methodology to analyze local frustration patterns within protein families...
6.
Sanches M, Parra R, Viegas R, Oliveira Jr A, Wolynes P, Ferreiro D, et al.
QRB Discov
. 2023 Aug;
3:e7.
PMID: 37529289
Ankyrin (ANK) repeat proteins are coded by tandem occurrences of patterns with around 33 amino acids. They often mediate protein-protein interactions in a diversity of biological systems. These proteins have...
7.
Sanchez I, Galpern E, Garibaldi M, Ferreiro D
J Phys Chem B
. 2022 Oct;
126(43):8655-8668.
PMID: 36282961
We propose an application of molecular information theory to analyze the folding of single domain proteins. We analyze results from various areas of protein science, such as sequence-based potentials, reduced...
8.
Galpern E, Marchi J, Mora T, Walczak A, Ferreiro D
Proc Natl Acad Sci U S A
. 2022 Jul;
119(31):e2204131119.
PMID: 35905321
Repeat proteins are made with tandem copies of similar amino acid stretches that fold into elongated architectures. These proteins constitute excellent model systems to investigate how evolution relates to structure,...
9.
Galaz-Davison P, Ferreiro D, Ramirez-Sarmiento C
Protein Sci
. 2022 May;
31(6):e4337.
PMID: 35634768
The NusG protein family is structurally and functionally conserved in all domains of life. Its members directly bind RNA polymerases and regulate transcription processivity and termination. RfaH, a divergent sub-family...
10.
Bromberg Y, Aptekmann A, Mahlich Y, Cook L, Senn S, Miller M, et al.
Sci Adv
. 2022 Jan;
8(2):eabj3984.
PMID: 35030025
Biological redox reactions drive planetary biogeochemical cycles. Using a novel, structure-guided sequence analysis of proteins, we explored the patterns of evolution of enzymes responsible for these reactions. Our analysis reveals...