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Items: 1 to 20 of 37

1.

RNA-protein interactions in an unstructured context.

Zagrovic B, Bartonek L, Polyansky AA.

FEBS Lett. 2018 Sep;592(17):2901-2916. doi: 10.1002/1873-3468.13116. Epub 2018 Jun 21. Review.

PMID:
29851074
2.

Self-Consistent Framework Connecting Experimental Proxies of Protein Dynamics with Configurational Entropy.

Fleck M, Polyansky AA, Zagrovic B.

J Chem Theory Comput. 2018 Jul 10;14(7):3796-3810. doi: 10.1021/acs.jctc.8b00100. Epub 2018 Jun 8.

PMID:
29799751
3.

A novel non-canonical PIP-box mediates PARG interaction with PCNA.

Kaufmann T, Grishkovskaya I, Polyansky AA, Kostrhon S, Kukolj E, Olek KM, Herbert S, Beltzung E, Mechtler K, Peterbauer T, Gotzmann J, Zhang L, Hartl M, Zagrovic B, Elsayad K, Djinovic-Carugo K, Slade D.

Nucleic Acids Res. 2017 Sep 19;45(16):9741-9759. doi: 10.1093/nar/gkx604.

4.

Dependence of Binding Free Energies between RNA Nucleobases and Protein Side Chains on Local Dielectric Properties.

de Ruiter A, Polyansky AA, Zagrovic B.

J Chem Theory Comput. 2017 Sep 12;13(9):4504-4513. doi: 10.1021/acs.jctc.6b01202. Epub 2017 Aug 16.

PMID:
28768101
5.

Fuento: functional enrichment for bioinformatics.

Weichselbaum D, Zagrovic B, Polyansky AA.

Bioinformatics. 2017 Aug 15;33(16):2604-2606. doi: 10.1093/bioinformatics/btx179.

6.

The Conformation of the Epidermal Growth Factor Receptor Transmembrane Domain Dimer Dynamically Adapts to the Local Membrane Environment.

Bocharov EV, Bragin PE, Pavlov KV, Bocharova OV, Mineev KS, Polyansky AA, Volynsky PE, Efremov RG, Arseniev AS.

Biochemistry. 2017 Mar 28;56(12):1697-1705. doi: 10.1021/acs.biochem.6b01085. Epub 2017 Mar 17.

PMID:
28291355
7.

Structural mechanism for the recognition and ubiquitination of a single nucleosome residue by Rad6-Bre1.

Gallego LD, Ghodgaonkar Steger M, Polyansky AA, Schubert T, Zagrovic B, Zheng N, Clausen T, Herzog F, Köhler A.

Proc Natl Acad Sci U S A. 2016 Sep 20;113(38):10553-8. doi: 10.1073/pnas.1606863113. Epub 2016 Sep 6.

8.

Inosine Nucleobase Acts as Guanine in Interactions with Protein Side Chains.

Hajnic M, Ruiter Ad, Polyansky AA, Zagrovic B.

J Am Chem Soc. 2016 May 4;138(17):5519-22. doi: 10.1021/jacs.6b02417. Epub 2016 Apr 22.

PMID:
27093234
9.

PARENT: A Parallel Software Suite for the Calculation of Configurational Entropy in Biomolecular Systems.

Fleck M, Polyansky AA, Zagrovic B.

J Chem Theory Comput. 2016 Apr 12;12(4):2055-65. doi: 10.1021/acs.jctc.5b01217. Epub 2016 Mar 18.

PMID:
26989950
10.

Adaptable Lipid Matrix Promotes Protein-Protein Association in Membranes.

Kuznetsov AS, Polyansky AA, Fleck M, Volynsky PE, Efremov RG.

J Chem Theory Comput. 2015 Sep 8;11(9):4415-26. doi: 10.1021/acs.jctc.5b00206. Epub 2015 Aug 18.

PMID:
26575933
11.

The evolutionarily conserved transcription factor PRDM12 controls sensory neuron development and pain perception.

Nagy V, Cole T, Van Campenhout C, Khoung TM, Leung C, Vermeiren S, Novatchkova M, Wenzel D, Cikes D, Polyansky AA, Kozieradzki I, Meixner A, Bellefroid EJ, Neely GG, Penninger JM.

Cell Cycle. 2015;14(12):1799-808. doi: 10.1080/15384101.2015.1036209. Erratum in: Cell Cycle. 2015;14(19):3203.

12.

The structure and regulation of human muscle α-actinin.

Ribeiro Ede A Jr, Pinotsis N, Ghisleni A, Salmazo A, Konarev PV, Kostan J, Sjöblom B, Schreiner C, Polyansky AA, Gkougkoulia EA, Holt MR, Aachmann FL, Zagrović B, Bordignon E, Pirker KF, Svergun DI, Gautel M, Djinović-Carugo K.

Cell. 2014 Dec 4;159(6):1447-60. doi: 10.1016/j.cell.2014.10.056. Epub 2014 Nov 26.

13.

On the Contribution of Protein Spatial Organization to the Physicochemical Interconnection between Proteins and Their Cognate mRNAs.

Beier A, Zagrovic B, Polyansky AA.

Life (Basel). 2014 Nov 21;4(4):788-99. doi: 10.3390/life4040788.

14.

A Lys-Trp cation-π interaction mediates the dimerization and function of the chloride intracellular channel protein 1 transmembrane domain.

Peter B, Polyansky AA, Fanucchi S, Dirr HW.

Biochemistry. 2014 Jan 14;53(1):57-67. doi: 10.1021/bi401433f. Epub 2013 Dec 20.

PMID:
24328417
15.

Analogue encoding of physicochemical properties of proteins in their cognate messenger RNAs.

Polyansky AA, Hlevnjak M, Zagrovic B.

Nat Commun. 2013;4:2784. doi: 10.1038/ncomms3784.

16.

PREDDIMER: a web server for prediction of transmembrane helical dimers.

Polyansky AA, Chugunov AO, Volynsky PE, Krylov NA, Nolde DE, Efremov RG.

Bioinformatics. 2014 Mar 15;30(6):889-90. doi: 10.1093/bioinformatics/btt645. Epub 2013 Nov 7.

PMID:
24202542
17.
18.

Evidence of direct complementary interactions between messenger RNAs and their cognate proteins.

Polyansky AA, Zagrovic B.

Nucleic Acids Res. 2013 Oct;41(18):8434-43. doi: 10.1093/nar/gkt618. Epub 2013 Jul 18.

19.

Role of dimerization efficiency of transmembrane domains in activation of fibroblast growth factor receptor 3.

Volynsky PE, Polyansky AA, Fakhrutdinova GN, Bocharov EV, Efremov RG.

J Am Chem Soc. 2013 Jun 5;135(22):8105-8. doi: 10.1021/ja4011942. Epub 2013 May 23.

PMID:
23679838
20.

Modular organization of α-toxins from scorpion venom mirrors domain structure of their targets, sodium channels.

Chugunov AO, Koromyslova AD, Berkut AA, Peigneur S, Tytgat J, Polyansky AA, Pentkovsky VM, Vassilevski AA, Grishin EV, Efremov RG.

J Biol Chem. 2013 Jun 28;288(26):19014-27. doi: 10.1074/jbc.M112.431650. Epub 2013 May 1.

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