Results 31 to 40 of about 802 (159)

Synergistic perspectives—How single‐molecule biophysics complement biochemical understanding

FEBS Letters, EarlyView.
In this review, we discuss how ensemble biochemistry and single‐molecule approaches are complementary, outline commonly used single‐molecule techniques, and illustrate their relevance through two representative case studies: chromatin organization by SMC complexes and pathway choice during DNA double‐strand break repair.
Sara De Bragança, Eline L. Jansen, Jorine M. Eeftens   +2 more
wiley   +1 more source

Structural and biochemical analysis of a B12 superbinder

FEBS Letters, EarlyView.
BtuG proteins are vitamin B12 scavengers in Bacteroides thetaiotaomicron, a dominant human gut bacterium. We present crystal structures of three BtuG homologs bound to cobalamin and its precursor cobinamide, revealing picomolar binding affinities, among the highest known for any natural protein.
Jose M. Martinez Felices, Jacob J. Whittaker, Dirk J. Slotboom, Albert Guskov   +3 more
wiley   +1 more source

Quantifying complexity in DNA structures with high resolution Atomic Force Microscopy

Nature Communications
DNA topology is essential for regulating cellular processes and maintaining genome stability, yet it is challenging to quantify due to the size and complexity of topologically constrained DNA molecules.
Elizabeth P. Holmes, Max C. Gamill, James I. Provan, Laura Wiggins, Renáta Rusková, Sylvia Whittle, Thomas E. Catley, Kavit H. S. Main, Neil Shephard, Helen. E. Bryant, Neville S. Gilhooly, Agnieszka Gambus, Dušan Račko, Sean D. Colloms, Alice L. B. Pyne   +14 more
doaj   +1 more source

Topoisomerase 2β and DNA topology during B cell development

Frontiers in Immunology, 2022
Topoisomerase 2β (TOP2B) introduces transient double strand breaks in the DNA helix to remove supercoiling structures and unwind entangled DNA strains. Advances in genomic technologies have enabled the discovery of novel functions for TOP2B in processes ...
Olivier Papapietro, Olivier Papapietro, Sergey Nejentsev, Sergey Nejentsev, Sergey Nejentsev   +4 more
doaj   +1 more source

From junk to function — How weak selection in eukaryotes builds new parts and drives genomic complexity

FEBS Letters, EarlyView.
How do genomes gain new functional parts? In eukaryotes, which tend to evolve under weak selection, much of the genome is junk. Palazzo and Qiu borrow the logic of Markov chains to show how non‐functional DNA becomes functional through the appearance of intermediate states, which arise due to epistasis, buffering, and biochemical messiness, allowing ...
Alexander F. Palazzo, Yi Qiu
wiley   +1 more source

DNA supercoiling-mediated G4/R-loop formation tunes transcription by controlling the access of RNA polymerase

Nature Communications
RNA polymerase (RNAP) is a processive motor that modulates DNA supercoiling and reshapes DNA structures. The feedback loop between the DNA topology and transcription remains elusive.
Jihee Hwang, Chun-Ying Lee, Sumitabha Brahmachari, Shubham Tripathi, Tapas Paul, Huijin Lee, Alanna Craig, Taekjip Ha, Sua Myong   +8 more
doaj   +1 more source

Membrane composition and thermodynamic identity as boundaries of life for synthetic cell research

FEBS Letters, EarlyView.
What makes a cell a cell? The boundary of a living cell is not just a wall. Read as a Markov blanket, the membrane separates internal from external states, generating identity and non‐equilibrium order. Can this identity be rebuilt from scratch in a synthetic cell?
Caterina Presutti, Bert Poolman
wiley   +1 more source

Increasing the activity of DNAzyme based on the telomeric sequence: 2’-OMe-RNA and LNA modifications

Open Chemistry, 2019
2’-OMe-RNA analogues and LNA point modifications of DNA oligonucleotides were applied for the modulation of the G-quadruplex topology and enhancement of peroxidase activity of the resulting DNAzymes.
Kosman J., Żukowski K., Juskowiak B.
doaj   +1 more source

Unique circulating miRNAome signatures captured with distinct molecular states in Lynch syndrome and sporadic colorectal cancer

Molecular Oncology, EarlyView.
Circulating microRNA profiles distinguish nonmalignant Lynch syndrome from cancer‐associated Lynch syndrome, sporadic colorectal cancer, and healthy controls. Age‐stratified analysis reveals disease‐specific regulatory states, and a six‐miRNA panel shows concordant separation in an independent colorectal tissue cohort.
Ramadhani Salum Chambuso, Md Shohel Ul Islam, Rosa M Xicola, Raj Ramesar, Xavier Llor, Sinclair Steele   +5 more
wiley   +1 more source

A benzothiazolium salt fluorophore for topology-specific discrimination of non-B DNA structures

Results in Chemistry
Accurate detection of non-B DNA structures remains challenging yet critical for understanding their roles in gene regulation, genome stability, and disease mechanisms.
Yawen Hou, Ruofeng Xu, Yujiao Hou, Yida Du, Keyi Gao, Jianlei Shen, Bin Chen   +6 more
doaj   +1 more source