Results 101 to 110 of about 6,254 (216)

Transcription initiation at a consensus bacterial promoter proceeds via a ‘bind-unwind-load-and-lock’ mechanism

eLife, 2021
Transcription initiation starts with unwinding of promoter DNA by RNA polymerase (RNAP) to form a catalytically competent RNAP-promoter complex (RPo). Despite extensive study, the mechanism of promoter unwinding has remained unclear, in part due to the ...
Abhishek Mazumder, Richard H Ebright, Achillefs N Kapanidis   +2 more
doaj   +1 more source

Sequential activation of human signal recognition particle by the ribosome and signal sequence drives efficient protein targeting [PDF]

, 2018
Signal recognition particle (SRP) is a universally conserved targeting machine that mediates the targeted delivery of ∼30% of the proteome. The molecular mechanism by which eukaryotic SRP achieves efficient and selective protein targeting remains elusive.
Chandrasekar, Sowmya, Chung, SangYoon, Fu, Yu-Hsien Hwang, Lee, Jae Ho, Liu, Demi, Shan, Shu-ou, Weiss, Shimon   +6 more
core   +2 more sources

Integrating FRET and Molecular Dynamics Simulation for Single‐Molecule Aptameric Detection of Staphylococcus aureus IsdA Surface Protein

Biotechnology Journal, Volume 20, Issue 9, September 2025.
Graphical Abstract and Lay Summary A single‐molecule FRET platform for high sensitivity detection of IsdA protein using a computationally derived RNA aptamer. ABSTRACT Staphylococcus aureus is ranked among the top five most common foodborne pathogens affecting public health and the economy worldwide.
Chamika Harshani Algama, Tracy A. Bruce‐Tagoe, Joy Adetunji, Tongye Shen, Michael K. Danquah, Soma Dhakal   +5 more
wiley   +1 more source

Evolution of protein-coupled RNA dynamics during hierarchical assembly of ribosomal complexes [PDF]

, 2017
Assembly of 30S ribosomes involves the hierarchical addition of ribosomal proteins that progressively stabilize the folded 16S rRNA. Here, we use three-color single molecule FRET to show how combinations of ribosomal proteins uS4, uS17 and bS20 in the ...
AD Mackerell Jr., AE Bunner, C Joo, D. G Sashital, G Bokinsky, GM Culver, GM Culver, H Kim, HN Motlagh, J Lai, J Lee, J Pan, JC Phillips, K Karbstein, KA Dill, KA Wilkinson, M Bubunenko, M Mayerle, MD Stone, MG Gagnon, MI Recht, MS Rook, MT Sykes, MW Talkington, N Foloppe, P Csermely, P Ramaswamy, R Hickerson, R Roy, RT Batey, S Hohng, S Mizushima, S Stern, S Stern, SC Abeysirigunawardena, SC Abeysirigunawardena, SC Agalarov, SM Vasa, T Adilakshmi, T Adilakshmi, T Ha, T Powers, V Berk, V Nowotny, W Humphrey, WA Held, WA Held, Z Shajani   +47 more
core   +2 more sources

Economical Method to Construct a Prism-based TIRF Setup on an Existing Confocal Microscope to Perform smFRET Experiments

bioRxiv
Total internal reflection fluorescence (TIRF) microscopy enables observation of complex bio-assemblies and macromolecular dynamics in high spatial-temporal resolution at single-molecule level in real-time.
P. Agarwala, Dibyendu K. Sasmal
semanticscholar   +1 more source

A single H/ACA small nucleolar RNA mediates tumor suppression downstream of oncogenic RAS. [PDF]

, 2019
Small nucleolar RNAs (snoRNAs) are a diverse group of non-coding RNAs that direct chemical modifications at specific residues on other RNA molecules, primarily on ribosomal RNA (rRNA).
Blanchard, Scott C, Calvert, Meredith E, Chen, Bin, Contreras, Adrian, Forester, Craig M, Gill, Ryan M, Gordan, John D, Holm, Mikael, Jackson, Cody, Kelley, R Kate, Luk, John M, McMahon, Mary, Pang, Xiaming, Quigley, David A, Ruggero, Davide, Uechi, Tamayo   +15 more
core   +1 more source

A coarse‐grained model for disordered proteins under crowded conditions

Protein Science, Volume 34, Issue 8, August 2025.
Abstract Macromolecular crowding may strongly affect the dynamics and function of proteins, with intrinsically disordered proteins being particularly sensitive to their crowded environment. To understand the influences of crowding on chain compaction and phase separation (PS) behavior of disordered proteins, both experiments with synthetic crowders ...
Arriën Symon Rauh, Giulio Tesei, Kresten Lindorff‐Larsen   +2 more
wiley   +1 more source

Force and Fluorescence Experiments in a Hybrid smFRET Magnetic Tweezer [PDF]

Biophysical Journal, 2013
Single-molecule FRET has become a powerful tool to study conformational changes in cellular machines and many other biomolecules. Labeled with fluorophores at specific positions, distance changes can be tracked with high temporal and spatial resolution.
Swoboda, Marko, Grieb, Maj Svea, Hahn, Steffen, Friebe, Stephan, Schlierf, Michael   +4 more
openaire   +1 more source

Sequence-dependent DNA condensation as a driving force of DNA phase separation [PDF]

, 2018
The physical properties of DNA have been suggested to play a central role in spatio-temporal organization of eukaryotic chromosomes. Experimental correlations have been established between the local nucleotide content of DNA and the frequency of inter ...
Aleksei Aksimentiev, Baldwin, Besteman, Burgess, Byeong-Kwon Sohn, Case, Childs, Cisse, Conwell, Cornell, Cruz, Dai, Danilowicz, Darden, Das, Deng, DeRouchey, DeRouchey, Dion, Douarche, Drew, Gladyshev, Grewal, Hajin Kim, Hess, Hess, Hong Soo Lee, Hoopes, Hoover, Hornak, Hud, Hyunju Kang, Imakaev, Jejoong Yoo, Jorgensen, Joung, Jung-Min Kee, Katz, Kornyshev, Korolev, Korolev, Kumar, Larson, Le, Leng, Li, Lieberman-Aiden, Lindorff‐Larsen, Lipfert, Lu, Luckel, Luger, Misteli, Miyamoto, Nathan, Nerenberg, Ngo, Nosé, Parrinello, Pérez, Pérez, Qiu, Raspaud, Raspaud, Rau, Rau, Sarhan, Schellman, Seung-Won Lee, Souaille, Spector, Strom, Tang, Todd, Tolokh, Vafabakhsh, Wang, Wenjie Ma, Yoo, Yoo, Yoo, Yoo, Young, Zoli   +83 more
core   +2 more sources

Protein aggregation and neurodegenerative disease: Structural outlook for the novel therapeutics

Proteins: Structure, Function, and Bioinformatics, Volume 93, Issue 8, Page 1314-1329, August 2025.
Abstract Before the controversial approval of humanized monoclonal antibody lecanemab, which binds to the soluble amyloid‐β protofibrils, all the treatments available earlier, for Alzheimer's disease (AD) were symptomatic. The researchers are still struggling to find a breakthrough in AD therapeutic medicine, which is partially attributable to lack in ...
Sharif Arar, Md Anzarul Haque, Rakez Kayed   +2 more
wiley   +1 more source