Literature DB >> 29182773

Mechanism of formation of a toroid around DNA by the mismatch sensor protein.

Shivlee Nirwal1,2, Dhananjaya S Kulkarni3, Amit Sharma4, Desirazu N Rao3, Deepak T Nair1.   

Abstract

The DNA mismatch repair (MMR) pathway removes errors that appear during genome replication. MutS is the primary mismatch sensor and forms an asymmetric dimer that encircles DNA to bend it to scan for mismatches. The mechanism utilized to load DNA into the central tunnel was unknown and the origin of the force required to bend DNA was unclear. We show that, in absence of DNA, MutS forms a symmetric dimer wherein a gap exists between the monomers through which DNA can enter the central tunnel. The comparison with structures of MutS-DNA complexes suggests that the mismatch scanning monomer (Bm) will move by nearly 50 Å to associate with the other monomer (Am). Consequently, the N-terminal domains of both monomers will press onto DNA to bend it. The proposed mechanism of toroid formation evinces that the force required to bend DNA arises primarily due to the movement of Bm and hence, the MutS dimer acts like a pair of pliers to bend DNA. We also shed light on the allosteric mechanism that influences the expulsion of adenosine triphosphate from Am on DNA binding. Overall, this study provides mechanistic insight regarding the primary event in MMR i.e. the assembly of the MutS-DNA complex.
© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Year:  2018        PMID: 29182773      PMCID: PMC5758902          DOI: 10.1093/nar/gkx1149

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  37 in total

1.  Composite active site of an ABC ATPase: MutS uses ATP to verify mismatch recognition and authorize DNA repair.

Authors:  M S Junop; G Obmolova; K Rausch; P Hsieh; W Yang
Journal:  Mol Cell       Date:  2001-01       Impact factor: 17.970

2.  Large conformational changes in MutS during DNA scanning, mismatch recognition and repair signalling.

Authors:  Ruoyi Qiu; Vanessa C DeRocco; Credle Harris; Anushi Sharma; Manju M Hingorani; Dorothy A Erie; Keith R Weninger
Journal:  EMBO J       Date:  2012-04-13       Impact factor: 11.598

3.  ATP alters the diffusion mechanics of MutS on mismatched DNA.

Authors:  Won-Ki Cho; Cherlhyun Jeong; Daehyung Kim; Minhyeok Chang; Kyung-Mi Song; Jeungphill Hanne; Changill Ban; Richard Fishel; Jong-Bong Lee
Journal:  Structure       Date:  2012-06-07       Impact factor: 5.006

Review 4.  DNA mismatch repair: functions and mechanisms.

Authors:  Ravi R Iyer; Anna Pluciennik; Vickers Burdett; Paul L Modrich
Journal:  Chem Rev       Date:  2006-02       Impact factor: 60.622

5.  Loading of the nonhomologous end joining factor, Ku, on protein-occluded DNA ends.

Authors:  Steven A Roberts; Dale A Ramsden
Journal:  J Biol Chem       Date:  2007-02-08       Impact factor: 5.157

Review 6.  The Ku heterodimer: function in DNA repair and beyond.

Authors:  Victoria L Fell; Caroline Schild-Poulter
Journal:  Mutat Res Rev Mutat Res       Date:  2014-07-04       Impact factor: 5.657

7.  Crystal structures of mismatch repair protein MutS and its complex with a substrate DNA.

Authors:  G Obmolova; C Ban; P Hsieh; W Yang
Journal:  Nature       Date:  2000-10-12       Impact factor: 49.962

8.  Crystal structure and biochemical analysis of the MutS.ADP.beryllium fluoride complex suggests a conserved mechanism for ATP interactions in mismatch repair.

Authors:  Eric Alani; Jae Young Lee; Mark J Schofield; Amanda W Kijas; Peggy Hsieh; Wei Yang
Journal:  J Biol Chem       Date:  2003-02-11       Impact factor: 5.157

9.  MutS switches between two fundamentally distinct clamps during mismatch repair.

Authors:  Cherlhyun Jeong; Won-Ki Cho; Kyung-Mi Song; Christopher Cook; Tae-Young Yoon; Changill Ban; Richard Fishel; Jong-Bong Lee
Journal:  Nat Struct Mol Biol       Date:  2011-01-30       Impact factor: 15.369

10.  Phaser crystallographic software.

Authors:  Airlie J McCoy; Ralf W Grosse-Kunstleve; Paul D Adams; Martyn D Winn; Laurent C Storoni; Randy J Read
Journal:  J Appl Crystallogr       Date:  2007-07-13       Impact factor: 3.304

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  4 in total

1.  Cryogenic electron microscopy structures reveal how ATP and DNA binding in MutS coordinates sequential steps of DNA mismatch repair.

Authors:  Alessandro Borsellini; Vladislav Kunetsky; Peter Friedhoff; Meindert H Lamers
Journal:  Nat Struct Mol Biol       Date:  2022-01-10       Impact factor: 18.361

2.  Reactive Acrylamide-Modified DNA Traps for Accurate Cross-Linking with Cysteine Residues in DNA-Protein Complexes Using Mismatch Repair Protein MutS as a Model.

Authors:  Mayya V Monakhova; Elena A Kubareva; Kirill K Kolesnikov; Viktor A Anashkin; Egor M Kosaretskiy; Maria I Zvereva; Elena A Romanova; Peter Friedhoff; Tatiana S Oretskaya; Timofei S Zatsepin
Journal:  Molecules       Date:  2022-04-10       Impact factor: 4.927

3.  Mechanism of rutin mediated inhibition of insulin amyloid formation and protection of Neuro-2a cells from fibril-induced apoptosis.

Authors:  V P Mahendra; K Yogendra Prasad; P Ganesan; Ravi Kumar
Journal:  Mol Biol Rep       Date:  2020-04-02       Impact factor: 2.316

4.  The full-length structure of Thermus scotoductus OLD defines the ATP hydrolysis properties and catalytic mechanism of Class 1 OLD family nucleases.

Authors:  Carl J Schiltz; Myfanwy C Adams; Joshua S Chappie
Journal:  Nucleic Acids Res       Date:  2020-03-18       Impact factor: 16.971

  4 in total

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