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Results: 1 to 20 of 165

1.

The N-terminal Domain Allosterically Regulates Cleavage and Activation of the Epithelial Sodium Channel.

Kota P, Buchner G, Chakraborty H, Dang YL, He H, Garcia GJ, Kubelka J, Gentzsch M, Stutts MJ, Dokholyan NV.

J Biol Chem. 2014 Jun 28. pii: jbc.M114.570952. [Epub ahead of print]

PMID:
24973914
[PubMed - as supplied by publisher]
Free Article
2.

Pore Dynamics and Conductance of RyR1 Transmembrane Domain.

Shirvanyants D, Ramachandran S, Mei Y, Xu L, Meissner G, Dokholyan NV.

Biophys J. 2014 Jun 3;106(11):2375-84. doi: 10.1016/j.bpj.2014.04.023.

PMID:
24896116
[PubMed - in process]
3.

Discrete molecular dynamics can predict helical prestructured motifs in disordered proteins.

Szöllősi D, Horváth T, Han KH, Dokholyan NV, Tompa P, Kalmár L, Hegedűs T.

PLoS One. 2014 Apr 24;9(4):e95795. doi: 10.1371/journal.pone.0095795. eCollection 2014.

PMID:
24763499
[PubMed - in process]
Free PMC Article
4.

Identification of an actin binding surface on vinculin that mediates mechanical cell and focal adhesion properties.

Thompson PM, Tolbert CE, Shen K, Kota P, Palmer SM, Plevock KM, Orlova A, Galkin VE, Burridge K, Egelman EH, Dokholyan NV, Superfine R, Campbell SL.

Structure. 2014 May 6;22(5):697-706. doi: 10.1016/j.str.2014.03.002. Epub 2014 Mar 27.

PMID:
24685146
[PubMed - in process]
5.

Non-native soluble oligomers of Cu/Zn superoxide dismutase (SOD1) contain a conformational epitope linked to cytotoxicity in amyotrophic lateral sclerosis (ALS).

Redler RL, Fee L, Fay JM, Caplow M, Dokholyan NV.

Biochemistry. 2014 Apr 15;53(14):2423-32. doi: 10.1021/bi500158w. Epub 2014 Apr 2.

PMID:
24660965
[PubMed - indexed for MEDLINE]
6.

Intrinsic disorder mediates cooperative signal transduction in STIM1.

Furukawa Y, Teraguchi S, Ikegami T, Dagliyan O, Jin L, Hall D, Dokholyan NV, Namba K, Akira S, Kurosaki T, Baba Y, Standley DM.

J Mol Biol. 2014 May 15;426(10):2082-97. doi: 10.1016/j.jmb.2014.03.006. Epub 2014 Mar 17.

PMID:
24650897
[PubMed - indexed for MEDLINE]
Free Article
7.

Computational approaches to understanding protein aggregation in neurodegeneration.

Redler RL, Shirvanyants D, Dagliyan O, Ding F, Kim DN, Kota P, Proctor EA, Ramachandran S, Tandon A, Dokholyan NV.

J Mol Cell Biol. 2014 Apr;6(2):104-15. doi: 10.1093/jmcb/mju007. Epub 2014 Mar 11.

PMID:
24620031
[PubMed - in process]
Free Article
8.

The maturation of HIV-1 protease precursor studied by discrete molecular dynamics.

Kimura S, Caldarini M, Broglia RA, Dokholyan NV, Tiana G.

Proteins. 2014 Apr;82(4):633-9. doi: 10.1002/prot.24440. Epub 2013 Nov 22.

PMID:
24123234
[PubMed - in process]
9.

Identification of novel integrin binding partners for calcium and integrin binding protein 1 (CIB1): structural and thermodynamic basis of CIB1 promiscuity.

Freeman TC Jr, Black JL, Bray HG, Dagliyan O, Wu YI, Tripathy A, Dokholyan NV, Leisner TM, Parise LV.

Biochemistry. 2013 Oct 8;52(40):7082-90. doi: 10.1021/bi400678y. Epub 2013 Sep 25.

PMID:
24011356
[PubMed - indexed for MEDLINE]
10.

Protein HP1028 from the human pathogen Helicobacter pylori belongs to the lipocalin family.

Barison N, Cendron L, Loconte V, Proctor EA, Dokholyan NV, Zanotti G.

Acta Crystallogr D Biol Crystallogr. 2013 Aug;69(Pt 8):1387-94. doi: 10.1107/S0907444913008160. Epub 2013 Jul 13.

PMID:
23897462
[PubMed - indexed for MEDLINE]
11.

Predicting binding affinity of CSAR ligands using both structure-based and ligand-based approaches.

Fourches D, Muratov E, Ding F, Dokholyan NV, Tropsha A.

J Chem Inf Model. 2013 Aug 26;53(8):1915-22. doi: 10.1021/ci400216q. Epub 2013 Jul 17.

PMID:
23809015
[PubMed - indexed for MEDLINE]
12.

Knowledge-based design of a biosensor to quantify localized ERK activation in living cells.

Kummer L, Hsu CW, Dagliyan O, MacNevin C, Kaufholz M, Zimmermann B, Dokholyan NV, Hahn KM, Plückthun A.

Chem Biol. 2013 Jun 20;20(6):847-56. doi: 10.1016/j.chembiol.2013.04.016.

PMID:
23790495
[PubMed - indexed for MEDLINE]
Free Article
13.

Submillisecond elastic recoil reveals molecular origins of fibrin fiber mechanics.

Hudson NE, Ding F, Bucay I, O'Brien ET 3rd, Gorkun OV, Superfine R, Lord ST, Dokholyan NV, Falvo MR.

Biophys J. 2013 Jun 18;104(12):2671-80. doi: 10.1016/j.bpj.2013.04.052.

PMID:
23790375
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Rational design of a ligand-controlled protein conformational switch.

Dagliyan O, Shirvanyants D, Karginov AV, Ding F, Fee L, Chandrasekaran SN, Freisinger CM, Smolen GA, Huttenlocher A, Hahn KM, Dokholyan NV.

Proc Natl Acad Sci U S A. 2013 Apr 23;110(17):6800-4. doi: 10.1073/pnas.1218319110. Epub 2013 Apr 8.

PMID:
23569285
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Dynamics intrinsic to cystic fibrosis transmembrane conductance regulator function and stability.

Chong PA, Kota P, Dokholyan NV, Forman-Kay JD.

Cold Spring Harb Perspect Med. 2013 Mar 1;3(3):a009522. doi: 10.1101/cshperspect.a009522. Review.

PMID:
23457292
[PubMed - indexed for MEDLINE]
16.

Structural determinants of skeletal muscle ryanodine receptor gating.

Ramachandran S, Chakraborty A, Xu L, Mei Y, Samsó M, Dokholyan NV, Meissner G.

J Biol Chem. 2013 Mar 1;288(9):6154-65. doi: 10.1074/jbc.M112.433789. Epub 2013 Jan 14.

PMID:
23319589
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Principles for understanding the accuracy of SHAPE-directed RNA structure modeling.

Leonard CW, Hajdin CE, Karabiber F, Mathews DH, Favorov OV, Dokholyan NV, Weeks KM.

Biochemistry. 2013 Jan 29;52(4):588-95. doi: 10.1021/bi300755u. Epub 2013 Jan 14.

PMID:
23316814
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Statistical analysis of SHAPE-directed RNA secondary structure modeling.

Ramachandran S, Ding F, Weeks KM, Dokholyan NV.

Biochemistry. 2013 Jan 29;52(4):596-9. doi: 10.1021/bi300756s. Epub 2013 Jan 14.

PMID:
23286327
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Highly covarying residues have a functional role in antibody constant domains.

Proctor EA, Kota P, Demarest SJ, Caravella JA, Dokholyan NV.

Proteins. 2013 May;81(5):884-95. doi: 10.1002/prot.24247. Epub 2013 Feb 27.

PMID:
23280585
[PubMed - indexed for MEDLINE]
20.

Incorporating backbone flexibility in MedusaDock improves ligand-binding pose prediction in the CSAR2011 docking benchmark.

Ding F, Dokholyan NV.

J Chem Inf Model. 2013 Aug 26;53(8):1871-9. doi: 10.1021/ci300478y. Epub 2012 Dec 24.

PMID:
23237273
[PubMed - indexed for MEDLINE]

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