Citations (37)
Keep up to date with the latest research on this topic with citation updates for this article.
Read on this site (11)
A. Madhumalar & Manju Bansal. (2005) Sequence Preference for BI/BII Conformations in DNA: MD and Crystal Structure Data Analysis. Journal of Biomolecular Structure and Dynamics 23:1, pages 13-27.
Read now
Read now
Shibasish Chowdhury & Manju Bansal. (2001) A Nanosecond Molecular Dynamics Study of Antiparallel d(G)7 Quadruplex Structures: Effect of the Coordinated Cations. Journal of Biomolecular Structure and Dynamics 18:5, pages 647-669.
Read now
Read now
Shibasish Chowdhury & Manju Bansal. (2000) Effect of Coordinated Ions on Structure and Flexibility of Parallel G-quadruplexes: A Molecular Dynamics Study. Journal of Biomolecular Structure and Dynamics 17:6, pages 11-28.
Read now
Read now
Xiang-Jun Lu, MariaS. Babcock & WilmaK. Olson. (1999) Overview of Nucleic Acid Analysis Programs. Journal of Biomolecular Structure and Dynamics 16:4, pages 833-843.
Read now
Read now
Dhananjay Bhattacharyya & Manju Bansal. (1994) Analysis of Sequence Dependent Variations in Secondary and Tertiary Structure of tRNA Molecules. Journal of Biomolecular Structure and Dynamics 11:6, pages 1251-1275.
Read now
Read now
MariaS. Babcock, Edwin
P.D. Pednault & WilmaK. Olson. (1993) Nucleic Acid Structure Analysis: A Users Guide to a Collection of New Analysis Programs. Journal of Biomolecular Structure and Dynamics 11:3, pages 597-628.
Read now
Read now
Jiří Šponer & Jaroslav Kypr. (1993) Relationships among Rise, Cup, Roll and Stagger in DNA Suggested by Empirical Potential Studies of Base Stacking. Journal of Biomolecular Structure and Dynamics 11:1, pages 27-41.
Read now
Read now
Dhananjay Bhattacharyya & Manju Bansal. (1992) Groove Width and Depth of B-DNA Structures Depend on Local Variation in Slide. Journal of Biomolecular Structure and Dynamics 10:1, pages 213-226.
Read now
Read now
S. Mohan & N. Yathindra. (1992) Sequence Effects On The Propeller Twist Of Base Pairs In DNA Helices. Journal of Biomolecular Structure and Dynamics 9:6, pages 1195-1211.
Read now
Read now
Debasisa Mohanty & Manju Bansal. (1991) DNA Polymorphism and Local Variation in Base-Pair Orientation: A Theoretical Rationale. Journal of Biomolecular Structure and Dynamics 9:1, pages 127-142.
Read now
Read now
Dhananjay Bhattacharyya & Manju Bansal. (1990) Local Variability and Base Sequence Effects in DNA Crystal Structures. Journal of Biomolecular Structure and Dynamics 8:3, pages 539-572.
Read now
Read now
Articles from other publishers (26)
Dhananjay Bhattacharyya, Sukanya Halder, Sankar Basu, Debasish Mukherjee, Prasun Kumar & Manju Bansal. (2017) RNAHelix: computational modeling of nucleic acid structures with Watson–Crick and non-canonical base pairs. Journal of Computer-Aided Molecular Design 31:2, pages 219-235.
Crossref
Crossref
Sanchita Mukherjee, Manas Mondal & Dhananjay Bhattacharyya. 2016. Advanced Computing and Communication Technologies. Advanced Computing and Communication Technologies
3
15
.
Manas Mondal, Sanchita Mukherjee, Sukanya Halder & Dhananjay Bhattacharyya. (2015) Stacking geometry for non-canonical G:U wobble base pair containing dinucleotide sequences in RNA: dispersion-corrected DFT-D study. Biopolymers 103:6, pages 328-338.
Crossref
Crossref
Manas Mondal, Devapriya Choudhury, Jaydeb Chakrabarti & Dhananjay Bhattacharyya. (2015) Role of indirect readout mechanism in TATA box binding protein–DNA interaction. Journal of Computer-Aided Molecular Design 29:3, pages 283-295.
Crossref
Crossref
Senthilkumar Kailasam, Dhananjay Bhattacharyya & Manju Bansal. (2014) Sequence dependent variations in RNA duplex are related to non-canonical hydrogen bond interactions in dinucleotide steps. BMC Research Notes 7:1.
Crossref
Crossref
Sanchita Mukherjee, Sangeeta Kundu & Dhananjay Bhattacharyya. (2014) Temperature effect on poly(dA).poly(dT): molecular dynamics simulation studies of polymeric and oligomeric constructs. Journal of Computer-Aided Molecular Design 28:7, pages 735-749.
Crossref
Crossref
Sanchita Mukherjee, Senthilkumar Kailasam, Manju Bansal & Dhananjay Bhattacharyya. (2014)
Energy hyperspace for stacking interaction in
AU
/
AU
dinucleotide step: Dispersion-corrected density functional theory study
. Biopolymers 101:1, pages 107-120.
Crossref
Crossref
Ivana Beššeová, Pavel Banáš, Petra Kührová, Pavlína Košinová, Michal Otyepka & Jiří Šponer. (2012) Simulations of A-RNA Duplexes. The Effect of Sequence, Solute Force Field, Water Model, and Salt Concentration. The Journal of Physical Chemistry B 116:33, pages 9899-9916.
Crossref
Crossref
Justin Spiriti, Hiqmet Kamberaj, Adam M. R. de Graff, M. F. Thorpe & Arjan van der Vaart. (2012) DNA Bending through Large Angles Is Aided by Ionic Screening. Journal of Chemical Theory and Computation 8:6, pages 2145-2156.
Crossref
Crossref
B Jayaram, Tanya Singh & Marcia Fenley. 2011. Methods for Studying Nucleic Acid/Drug Interactions. Methods for Studying Nucleic Acid/Drug Interactions.
Marie Zgarbová, Michal Otyepka, Jiří Šponer, Arnošt Mládek, Pavel Banáš, Thomas E. CheathamIIIIII & Petr Jurečka. (2011) Refinement of the Cornell et al. Nucleic Acids Force Field Based on Reference Quantum Chemical Calculations of Glycosidic Torsion Profiles. Journal of Chemical Theory and Computation 7:9, pages 2886-2902.
Crossref
Crossref
Pavel BanášDaniel HollasMarie ZgarbováPetr JurečkaModesto OrozcoThomas E. CheathamIIIIIIJiří ŠponerMichal Otyepka. (2010) Performance of Molecular Mechanics Force Fields for RNA Simulations: Stability of UUCG and GNRA Hairpins. Journal of Chemical Theory and Computation 6:12, pages 3836-3849.
Crossref
Crossref
Lauren A. Britton, Wilma K. Olson & Irwin Tobias. (2009) Two perspectives on the twist of DNA. The Journal of Chemical Physics 131:24.
Crossref
Crossref
Arvind Marathe, Deepti Karandur & Manju Bansal. (2009) Small local variations in B-form DNA lead to a large variety of global geometries which can accommodate most DNA-binding protein motifs. BMC Structural Biology 9:1.
Crossref
Crossref
Shayantani Mukherjee, Manju Bansal & Dhananjay Bhattacharyya. (2006) Conformational specificity of non-canonical base pairs and higher order structures in nucleic acids: crystal structure database analysis. Journal of Computer-Aided Molecular Design 20:10-11, pages 629-645.
Crossref
Crossref
A. Madhumalar & Manju Bansal. (2003) Structural Insights into the Effect of Hydration and Ions on A-Tract DNA: A Molecular Dynamics Study. Biophysical Journal 85:3, pages 1805-1816.
Crossref
Crossref
Wilma K Olson, Manju Bansal, Stephen K Burley, Richard E Dickerson, Mark Gerstein, Stephen C Harvey, Udo Heinemann, Xiang-Jun Lu, Stephen Neidle, Zippora Shakked, Heinz Sklenar, Masashi Suzuki, Chang-Shung Tung, Eric Westhof, Cynthia Wolberger & Helen M Berman. (2001) A standard reference frame for the description of nucleic acid base-pair geometry. Journal of Molecular Biology 313:1, pages 229-237.
Crossref
Crossref
Shibasish Chowdhury & Manju Bansal. (2001) G-Quadruplex Structure Can Be Stable with Only Some Coordination Sites Being Occupied by Cations: A Six-Nanosecond Molecular Dynamics Study. The Journal of Physical Chemistry B 105:31, pages 7572-7578.
Crossref
Crossref
Matthew R. Redinbo, James J. Champoux & Wim G. J. Hol. (2000) Novel Insights into Catalytic Mechanism from a Crystal Structure of Human Topoisomerase I in Complex with DNA. Biochemistry 39:23, pages 6832-6840.
Crossref
Crossref
M. Bansal, M. Ravikiran & S. Chowdhury. 1999. Computational Molecular Biology. Computational Molecular Biology
279
323
.
Xiang-Jun Lu & Wilma K Olson. (1999) Resolving the discrepancies among nucleic acid conformational analyses 1 1Edited by I. Tinoco. Journal of Molecular Biology 285:4, pages 1563-1575.
Crossref
Crossref
Xiang-Jun Lu, M.A. El Hassan & C.A. Hunter. (1997) Structure and conformation of helical nucleic acids: analysis program (SCHNAaP) 1 1Edited by K. Nagai. Journal of Molecular Biology 273:3, pages 668-680.
Crossref
Crossref
P. K. Radha, Anup Madan, R. Nibedita & R. V. Hosur. (2002) Solution Structure of the Conserved Segment of the Myb Cognate DNA Sequence by 2D NMR, Spectral Simulation, Restrained Energy Minimization, and Distance Geometry Calculations. Biochemistry 34:17, pages 5913-5922.
Crossref
Crossref
Marla S. Babcock & Wilma K. Olson. 1993. Computation of Biomolecular Structures. Computation of Biomolecular Structures
65
85
.
Richard E Dickerson. 1992. DNA Structures Part A: Synthesis and Physical Analysis of DNA. DNA Structures Part A: Synthesis and Physical Analysis of DNA
67
111
.
Kevin M. Banks, Dennis R. Hare & Brian R. Reid. (2002) Three-dimensional solution structure of a DNA duplex containing the BclI restriction sequence: two-dimensional NMR studies, distance geometry calculations, and refinement by back-calculation of the NOESY spectrum. Biochemistry 28:17, pages 6996-7010.
Crossref
Crossref