Lindorff-Larsen K - Search Results

1

Discovering functionally important sites in proteins.

Cagiada M, Bottaro S, Lindemose S, Schenstrøm SM, Stein A, Hartmann-Petersen R, Lindorff-Larsen K. Cagiada M, et al. Nat Commun. 2023 Jul 13;14(1):4175. doi: 10.1038/s41467-023-39909-0. Nat Commun. 2023. PMID: 37443362 Free PMC article.

2

PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure.

Boomsma W, Frellsen J, Harder T, Bottaro S, Johansson KE, Tian P, Stovgaard K, Andreetta C, Olsson S, Valentin JB, Antonov LD, Christensen AS, Borg M, Jensen JH, Lindorff-Larsen K, Ferkinghoff-Borg J, Hamelryck T. Boomsma W, et al. J Comput Chem. 2013 Jul 15;34(19):1697-705. doi: 10.1002/jcc.23292. Epub 2013 Apr 26. J Comput Chem. 2013. PMID: 23619610

3

Variational Optimization of an All-Atom Implicit Solvent Force Field to Match Explicit Solvent Simulation Data.

Bottaro S, Lindorff-Larsen K, Best RB. Bottaro S, et al. J Chem Theory Comput. 2013 Dec 10;9(12):5641-5652. doi: 10.1021/ct400730n. J Chem Theory Comput. 2013. PMID: 24748852 Free PMC article.

4

A Two-step Protein Quality Control Pathway for a Misfolded DJ-1 Variant in Fission Yeast.

Mathiassen SG, Larsen IB, Poulsen EG, Madsen CT, Papaleo E, Lindorff-Larsen K, Kragelund BB, Nielsen ML, Kriegenburg F, Hartmann-Petersen R. Mathiassen SG, et al. J Biol Chem. 2015 Aug 21;290(34):21141-21153. doi: 10.1074/jbc.M115.662312. Epub 2015 Jul 7. J Biol Chem. 2015. PMID: 26152728 Free PMC article.

5

Bioinformatics analysis identifies several intrinsically disordered human E3 ubiquitin-protein ligases.

Boomsma W, Nielsen SV, Lindorff-Larsen K, Hartmann-Petersen R, Ellgaard L. Boomsma W, et al. PeerJ. 2016 Feb 25;4:e1725. doi: 10.7717/peerj.1725. eCollection 2016. PeerJ. 2016. PMID: 26966660 Free PMC article.

6

Correction to Variational Optimization of an All-Atom Implicit Solvent Force Field To Match Explicit Solvent Simulation Data.

Bottaro S, Lindorff-Larsen K, Best RB. Bottaro S, et al. J Chem Theory Comput. 2017 Jan 10;13(1):392. doi: 10.1021/acs.jctc.6b01188. Epub 2016 Dec 19. J Chem Theory Comput. 2017. PMID: 27990814 Free PMC article. No abstract available.

7

Predicting the impact of Lynch syndrome-causing missense mutations from structural calculations.

Nielsen SV, Stein A, Dinitzen AB, Papaleo E, Tatham MH, Poulsen EG, Kassem MM, Rasmussen LJ, Lindorff-Larsen K, Hartmann-Petersen R. Nielsen SV, et al. PLoS Genet. 2017 Apr 19;13(4):e1006739. doi: 10.1371/journal.pgen.1006739. eCollection 2017 Apr. PLoS Genet. 2017. PMID: 28422960 Free PMC article.

8

Mapping the Universe of RNA Tetraloop Folds.

Bottaro S, Lindorff-Larsen K. Bottaro S, et al. Biophys J. 2017 Jul 25;113(2):257-267. doi: 10.1016/j.bpj.2017.06.011. Epub 2017 Jun 30. Biophys J. 2017. PMID: 28673616 Free PMC article.

9

Blocking protein quality control to counter hereditary cancers.

Kampmeyer C, Nielsen SV, Clausen L, Stein A, Gerdes AM, Lindorff-Larsen K, Hartmann-Petersen R. Kampmeyer C, et al. Genes Chromosomes Cancer. 2017 Dec;56(12):823-831. doi: 10.1002/gcc.22487. Epub 2017 Sep 6. Genes Chromosomes Cancer. 2017. PMID: 28779490 Review.

10

Conformational ensembles of RNA oligonucleotides from integrating NMR and molecular simulations.

Bottaro S, Bussi G, Kennedy SD, Turner DH, Lindorff-Larsen K. Bottaro S, et al. Sci Adv. 2018 May 18;4(5):eaar8521. doi: 10.1126/sciadv.aar8521. eCollection 2018 May. Sci Adv. 2018. PMID: 29795785 Free PMC article.

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