DNA-segment-capture model for loop extrusion by structural maintenance of chromosome (SMC) protein complexes.
Adenosine Diphosphate
/ metabolism
Adenosine Triphosphate
/ metabolism
Animals
Bacterial Proteins
/ metabolism
Cell Cycle Proteins
/ metabolism
Chromosomal Proteins, Non-Histone
/ metabolism
DNA
/ chemistry
Eukaryotic Cells
/ metabolism
Kinetics
Models, Chemical
Molecular Motor Proteins
/ metabolism
Multiprotein Complexes
/ metabolism
Nucleic Acid Conformation
Protein Binding
Protein Conformation
Stress, Mechanical
Thermodynamics
Cohesins
Journal
Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011
Informations de publication
Date de publication:
26 07 2019
26 07 2019
Historique:
accepted:
06
06
2019
revised:
20
05
2019
received:
16
05
2018
pubmed:
9
6
2019
medline:
7
1
2020
entrez:
9
6
2019
Statut:
ppublish
Résumé
Cells possess remarkable control of the folding and entanglement topology of long and flexible chromosomal DNA molecules. It is thought that structural maintenance of chromosome (SMC) protein complexes play a crucial role in this, by organizing long DNAs into series of loops. Experimental data suggest that SMC complexes are able to translocate on DNA, as well as pull out lengths of DNA via a 'loop extrusion' process. We describe a Brownian loop-capture-ratchet model for translocation and loop extrusion based on known structural, catalytic, and DNA-binding properties of the Bacillus subtilis SMC complex. Our model provides an example of a new class of molecular motor where large conformational fluctuations of the motor 'track'-in this case DNA-are involved in the basic translocation process. Quantitative analysis of our model leads to a series of predictions for the motor properties of SMC complexes, most strikingly a strong dependence of SMC translocation velocity and step size on tension in the DNA track that it is moving along, with 'stalling' occuring at subpiconewton tensions. We discuss how the same mechanism might be used by structurally related SMC complexes (Escherichia coli MukBEF and eukaryote condensin, cohesin and SMC5/6) to organize genomic DNA.
Identifiants
pubmed: 31175837
pii: 5512983
doi: 10.1093/nar/gkz497
pmc: PMC6649773
doi:
Substances chimiques
Bacterial Proteins
0
Cell Cycle Proteins
0
Chromosomal Proteins, Non-Histone
0
Molecular Motor Proteins
0
Multiprotein Complexes
0
SMC protein, Bacteria
0
Adenosine Diphosphate
61D2G4IYVH
Adenosine Triphosphate
8L70Q75FXE
DNA
9007-49-2
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
6956-6972Subventions
Organisme : NIGMS NIH HHS
ID : R01 GM105847
Pays : United States
Informations de copyright
© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.
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