Ramachandran S - Search Results

1

ATP hydrolysis at one of the two sites in ABC transporters initiates transport related conformational transitions.

Gyimesi G, Ramachandran S, Kota P, Dokholyan NV, Sarkadi B, Hegedus T. Gyimesi G, et al. Among authors: ramachandran s. Biochim Biophys Acta. 2011 Dec;1808(12):2954-64. doi: 10.1016/j.bbamem.2011.07.038. Epub 2011 Aug 3. Biochim Biophys Acta. 2011. PMID: 21840296 Free article.

2

Automated minimization of steric clashes in protein structures.

Ramachandran S, Kota P, Ding F, Dokholyan NV. Ramachandran S, et al. Proteins. 2011 Jan;79(1):261-70. doi: 10.1002/prot.22879. Proteins. 2011. PMID: 21058396 Free PMC article.

3

Gaia: automated quality assessment of protein structure models.

Kota P, Ding F, Ramachandran S, Dokholyan NV. Kota P, et al. Among authors: ramachandran s. Bioinformatics. 2011 Aug 15;27(16):2209-15. doi: 10.1093/bioinformatics/btr374. Epub 2011 Jun 23. Bioinformatics. 2011. PMID: 21700672 Free PMC article.

4

Discrete molecular dynamics: an efficient and versatile simulation method for fine protein characterization.

Shirvanyants D, Ding F, Tsao D, Ramachandran S, Dokholyan NV. Shirvanyants D, et al. Among authors: ramachandran s. J Phys Chem B. 2012 Jul 26;116(29):8375-82. doi: 10.1021/jp2114576. Epub 2012 Feb 10. J Phys Chem B. 2012. PMID: 22280505 Free PMC article.

5

Recognition of platinum-DNA adducts by HMGB1a.

Ramachandran S, Temple B, Alexandrova AN, Chaney SG, Dokholyan NV. Ramachandran S, et al. Biochemistry. 2012 Sep 25;51(38):7608-17. doi: 10.1021/bi3008577. Epub 2012 Sep 14. Biochemistry. 2012. PMID: 22950413

6

Structural basis for the sequence-dependent effects of platinum-DNA adducts.

Ramachandran S, Temple BR, Chaney SG, Dokholyan NV. Ramachandran S, et al. Nucleic Acids Res. 2009 May;37(8):2434-48. doi: 10.1093/nar/gkp029. Epub 2009 Mar 2. Nucleic Acids Res. 2009. PMID: 19255091 Free PMC article.

7

Pore dynamics and conductance of RyR1 transmembrane domain.

Shirvanyants D, Ramachandran S, Mei Y, Xu L, Meissner G, Dokholyan NV. Shirvanyants D, et al. Among authors: ramachandran s. Biophys J. 2014 Jun 3;106(11):2375-84. doi: 10.1016/j.bpj.2014.04.023. Biophys J. 2014. PMID: 24896116 Free PMC article.

8

Flanking bases influence the nature of DNA distortion by platinum 1,2-intrastrand (GG) cross-links.

Bhattacharyya D, Ramachandran S, Sharma S, Pathmasiri W, King CL, Baskerville-Abraham I, Boysen G, Swenberg JA, Campbell SL, Dokholyan NV, Chaney SG. Bhattacharyya D, et al. Among authors: ramachandran s. PLoS One. 2011;6(8):e23582. doi: 10.1371/journal.pone.0023582. Epub 2011 Aug 10. PLoS One. 2011. PMID: 21853154 Free PMC article.

9

Thermodynamic stability of histone H3 is a necessary but not sufficient driving force for its evolutionary conservation.

Ramachandran S, Vogel L, Strahl BD, Dokholyan NV. Ramachandran S, et al. PLoS Comput Biol. 2011 Jan 6;7(1):e1001042. doi: 10.1371/journal.pcbi.1001042. PLoS Comput Biol. 2011. PMID: 21253558 Free PMC article.

10

A structural model of the pore-forming region of the skeletal muscle ryanodine receptor (RyR1).

Ramachandran S, Serohijos AW, Xu L, Meissner G, Dokholyan NV. Ramachandran S, et al. PLoS Comput Biol. 2009 Apr;5(4):e1000367. doi: 10.1371/journal.pcbi.1000367. Epub 2009 Apr 24. PLoS Comput Biol. 2009. PMID: 19390614 Free PMC article.

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