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Nilesh Banavali

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Publications

TOP 3
Aymen S Yassin; Md Emdadul Haque; Partha P Datta; Kevin Elmore; Nilesh K Banavali; Linda L Spremulli; Rajendra K Agrawal
Insertion domain within mammalian mitochondrial translation initiation factor 2 serves the role of eubacterial initiation factor 1.
Aymen S Yassin; Rajendra K Agrawal; Nilesh K Banavali
Computational exploration of structural hypotheses for an additional sequence in a mammalian mitochondrial protein.
Lynn McNaughton; Irina Tikhonenko; Nilesh K Banavali; David M LeMaster; Michael P Koonce
A low affinity ground state conformation for the Dynein microtubule binding domain.

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All Publications

2011: Aymen S Yassin; Md Emdadul Haque; Partha P Datta; Kevin Elmore; Nilesh K Banavali; Linda L Spremulli; Rajendra K Agrawal
Insertion domain within mammalian mitochondrial translation initiation factor 2 serves the role of eubacterial initiation factor 1.
Proceedings of the National Academy of Sciences of the United States of America 2011;108(10):3918-23.
2011: Aymen S Yassin; Rajendra K Agrawal; Nilesh K Banavali
Computational exploration of structural hypotheses for an additional sequence in a mammalian mitochondrial protein.
PloS one 2011;6(7):e21871.
2010: Lynn McNaughton; Irina Tikhonenko; Nilesh K Banavali; David M LeMaster; Michael P Koonce
A low affinity ground state conformation for the Dynein microtubule binding domain.
The Journal of biological chemistry 2010;285(21):15994-6002.
2009: Sichun Yang; Nilesh K Banavali; Benoît Roux
Mapping the conformational transition in Src activation by cumulating the information from multiple molecular dynamics trajectories.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(10):3776-81.
2009: Nilesh K Banavali; Alexander D. Mackerell
Characterizing structural transitions using localized free energy landscape analysis.
PloS one 2009;4(5):e5525.
2007: Nilesh K Banavali; Benoît Roux
Anatomy of a structural pathway for activation of the catalytic domain of Src kinase Hck.
Proteins 2007;67(4):1096-112.
2007: Alba T Macias; Nilesh K Banavali; Alexander D. Mackerell
DNA bending induced by carbocyclic sugar analogs constrained to the north conformation.
Biopolymers 2007;85(5-6):438-49.
2006: Nilesh K Banavali; Niu Huang; Alexander D. Mackerell
Conserved patterns in backbone torsional changes allow for single base flipping from duplex DNA with minimal distortion of the double helix.
The journal of physical chemistry. B 2006;110(22):10997-1004.
2005: Nilesh K Banavali; Benoît Roux
The N-terminal end of the catalytic domain of SRC kinase Hck is a conformational switch implicated in long-range allosteric regulation.
Structure (London, England : 1993) 2005;13(11):1715-23.
2005: Nilesh K Banavali; Benoît Roux
Free energy landscape of A-DNA to B-DNA conversion in aqueous solution.
Journal of the American Chemical Society 2005;127(18):6866-76.
2004: John Horton; Gary Ratner; Nilesh K Banavali; Niu Huang; Yongseok Choi; Martin A Maier; Victor E Marquez; Alexander D. Mackerell; Xiaodong Cheng
Caught in the act: visualization of an intermediate in the DNA base-flipping pathway induced by HhaI methyltransferase.
Nucleic acids research 2004;32(13):3877-86.
2003: Niu Huang; Nilesh K Banavali; Alexander D. Mackerell
Protein-facilitated base flipping in DNA by cytosine-5-methyltransferase.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(1):68-73.
2002: Nilesh K Banavali; Alexander D. Mackerell
Free energy and structural pathways of base flipping in a DNA GCGC containing sequence.
Journal of molecular biology 2002;319(1):141-60.
2001: Nilesh K Banavali; Alexander D. Mackerell
Re-examination of the intrinsic, dynamic and hydration properties of phosphoramidate DNA.
Nucleic acids research 2001;29(15):3219-30.
2001: Nilesh K Banavali; Alexander D. Mackerell
Reevaluation of stereoelectronic contributions to the conformational properties of the phosphodiester and N3'-phosphoramidate moieties of nucleic acids.
Journal of the American Chemical Society 2001;123(28):6747-55.
2001: Victor E Marquez; P Wang; Marc C Nicklaus; M Maier; M Manoharan; J K Christman; Nilesh K Banavali; Alexander D. Mackerell
Inhibition of (cytosine C5)-methyltransferase by oligonucleotides containing flexible (cyclopentane) and conformationally constrained (bicyclo[3.1.0]hexane) abasic sites.
Nucleosides, nucleotides & nucleic acids 2001;20(4-7):451-9.
2000: Alexander D. Mackerell; Nilesh K Banavali; Nicolas Foloppe
Development and current status of the CHARMM force field for nucleic acids.
Biopolymers 2000;56(4):257-65.
1996: P Wang; C D Denoya; M R Morgenstern; D D Skinner; K K Wallace; Russell J Digate; S Patton; Nilesh K Banavali; G Schuler; M K Speedie; Kevin A Reynolds
Cloning and characterization of the gene encoding 1-cyclohexenylcarbonyl coenzyme A reductase from Streptomyces collinus.
Journal of bacteriology 1996;178(23):6873-81.