Results 11 to 20 of about 2,102,008 (248)

Real-time imaging of DNA loop extrusion by condensin. [PDF]

Science, 2018
Live imaging of DNA loop extrusion To spatially organize chromosomes, ring-shaped protein complexes including condensin and cohesin have been hypothesized to extrude DNA loops. Condensin has been shown to exhibit a DNA-translocating motor function, but extrusion has not been observed directly.
Ganji M, Shaltiel IA, Bisht S, Kim E, Kalichava A, Haering CH, Dekker C.   +6 more
europepmc   +9 more sources

Molecular dynamics simulations of human cohesin subunits identify DNA binding sites and their potential roles in DNA loop extrusion. [PDF]

PLoS Computational Biology
The SMC complex cohesin mediates interphase chromatin structural formation in eukaryotic cells through DNA loop extrusion. Here, we sought to investigate its mechanism using molecular dynamics simulations.
Chenyang Gu, Shoji Takada, Giovanni B Brandani, Tsuyoshi Terakawa   +3 more
doaj   +3 more sources

Condensin-driven loop extrusion on supercoiled DNA [PDF]

Nature Structural & Molecular Biology, 2021
Abstract Condensin, a structural maintenance of chromosomes (SMC) complex, has been shown to be a molecular motor protein that organizes chromosomes by extruding loops of DNA. In cells, such loop extrusion is challenged by many potential conflicts, e.g., the torsional stresses that are generated by other DNA-processing enzymes.
Eugene Kim, Alejandro Martin Gonzalez, Biswajit Pradhan, Jaco van der Torre, Cees Dekker   +4 more
core   +8 more sources

CTCF is a DNA-tension-dependent barrier to cohesin-mediated loop extrusion

Nature, 2023
AbstractIn eukaryotes, genomic DNA is extruded into loops by cohesin1. By restraining this process, the DNA-binding protein CCCTC-binding factor (CTCF) generates topologically associating domains (TADs)2,3 that have important roles in gene regulation and recombination during development and disease1,4–7.
Cees Dekker, Roman Barth, Richard Janissen   +2 more
exaly   +6 more sources

Loop-extrusion-mediated plasmid DNA cleavage by the bacterial SMC Wadjet complex [PDF]

Molecular Cell
Structural maintenance of chromosomes (SMC) protein complexes play pivotal roles in genome organization and maintenance across all domains of life. In prokaryotes, SMC family Wadjet complexes structurally resemble the widespread MukBEF genome-organizing complexes but serve a defensive role by inhibiting plasmid transformation. We previously showed that
Kevin Corbett, Eugene Kim, Biswajit Pradhan   +2 more
exaly   +6 more sources

Active Loop Extrusion guides DNA-Protein Condensation [PDF]

Physical Review Letters
The spatial organization of DNA involves DNA loop extrusion and the formation of protein-DNA condensates. While the significance of each process is increasingly recognized, their interplay remains unexplored. Using molecular dynamics simulation and theory we investigate this interplay. Our findings reveal that loop extrusion can enhance the dynamics of
Ryota Takaki, Yahor Savich, Jan Brugués, Frank Jülicher   +3 more
core   +7 more sources

Structural insights into DNA loop extrusion by SMC protein complexes. [PDF]

Curr Opin Struct Biol, 2020
Structural Maintenance of Chromosomes (SMC) protein complexes play key roles in the three-dimensional organization of genomes in all kingdoms of life. Recent insights from chromosome contact mapping experiments and single-molecule imaging assays suggest that these complexes achieve distinct cellular functions by extruding large loops of DNA while they ...
Datta S, Lecomte L, Haering CH.
europepmc   +4 more sources

DNA loop extrusion by human cohesin

Science, 2019
Cohesin extrudes DNA loops DNA is folded into loops in eukaryotic cells by a process that depends on a ring-shaped adenosine triphosphatase complex called cohesin. Davidson et al. and Kim et al.
Gordana Wütz, Jan-Michaél Peters, Iain Davidson   +2 more
exaly   +3 more sources

Current working models of SMC-driven DNA-loop extrusion

Biochemical Society Transactions, 2023
Structural maintenance of chromosome (SMC) proteins play a key roles in the chromosome organization by condensing two meters of DNA into cell-sized structures considered as the SMC protein extrudes DNA loop. Recent sequencing-based high-throughput chromosome conformation capture technique (Hi-C) and single-molecule experiments have provided direct ...
Je-Kyung Ryu
exaly   +3 more sources

Cohesin supercoils DNA during loop extrusion

Cell Reports
Cohesin extrudes genomic DNA into loops that promote chromatin assembly, gene regulation, and gene recombination. Loop extrusion depends on large-scale conformational changes in cohesin, but how these translocate DNA is poorly understood. Here, we provide evidence that cohesin negatively supercoils DNA during loop extrusion.
Jan-Michaél Peters
exaly   +4 more sources