Simulation and modeling of nucleic acid structure, dynamics and interactions.
about
The role of methylation in the intrinsic dynamics of B- and Z-DNASimilarities and differences in interaction of K+ and Na+ with condensed ordered DNA. A molecular dynamics computer simulation studyMolecular dynamics simulations and free energy calculations of netropsin and distamycin binding to an AAAAA DNA binding siteStructure and energy of a DNA dodecamer under tensile loadClose encounters with DNAConvergence and reproducibility in molecular dynamics simulations of the DNA duplex d(GCACGAACGAACGAACGC)A dynamic structural model of expanded RNA CAG repeats: a refined X-ray structure and computational investigations using molecular dynamics and umbrella sampling simulations.Using sequence-specific chemical and structural properties of DNA to predict transcription factor binding sitesThe N-clasp of human DNA polymerase kappa promotes blockage or error-free bypass of adenine- or guanine-benzo[a]pyrenyl lesionsRefinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformersBase-specific spin-labeling of RNA for structure determination.Computational exploration of mobile ion distributions around RNA duplexConformational dynamics of RNA-peptide binding: a molecular dynamics simulation study.A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA.Investigating dynamic and energetic determinants of protein nucleic acid recognition: analysis of the zinc finger zif268-DNA complexes.Extension and validation of the GLYCAM force field parameters for modeling glycosaminoglycans.Electrostatic hot spot on DNA-binding domains mediates phosphate desolvation and the pre-organization of specificity determinant side chains.Undulations enhance the effect of helical structure on DNA interactions.Molecular dynamics simulations of Guanine quadruplex loops: advances and force field limitations.Axis curvature and ligand induced bending in the CAP-DNA oligomersMolecular dynamics simulations suggest that RNA three-way junctions can act as flexible RNA structural elements in the ribosomeInduced fit and the entropy of structural adaptation in the complexation of CAP and lambda-repressor with cognate DNA sequences.Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. II: sequence context effects on the dynamical structures of the 10 unique dinucleotide steps.Binding-linked protonation of a DNA minor-groove agentX-ray diffraction "fingerprinting" of DNA structure in solution for quantitative evaluation of molecular dynamics simulation.Conformational transitions in RNA single uridine and adenosine bulge structures: a molecular dynamics free energy simulation study.A coarse-grained model of DNA with explicit solvation by water and ions.The effect of a G:T mispair on the dynamics of DNAConfigurational entropy change of netropsin and distamycin upon DNA minor-groove binding.Binding polymorphism in the DNA bound state of the Pdx1 homeodomainMinor groove deformability of DNA: a molecular dynamics free energy simulation study.B-DNA under stress: over- and untwisting of DNA during molecular dynamics simulations.A computational study of nucleosomal DNA flexibilityBlind predictions of DNA and RNA tweezers experiments with force and torque.A structure-based Multiple-Instance Learning approach to predicting in vitro transcription factor-DNA interaction.RNA and its ionic cloud: solution scattering experiments and atomically detailed simulations.High performance computing in biology: multimillion atom simulations of nanoscale systemsMolecular dynamics simulations of RNA: an in silico single molecule approach.Molecular dynamics: survey of methods for simulating the activity of proteins.Bridging the gap between theory and experiment to derive a detailed understanding of hammerhead ribozyme catalysis.
P2860
Q21134614-6204840E-11C9-4C65-8793-5238621586A6Q24540175-94A8660D-3123-4657-8C05-0C8A3BF190F6Q24801658-E6D6B1AF-2EB3-42D7-9D24-133ECDB9F494Q24812957-7F587EBE-BE02-4F86-8095-0BAA8FD0DB64Q26999396-FAB30368-E36E-472A-9D86-659EEBFA26F8Q27332083-0E33CA61-7E86-45EB-B21C-2FF4821BB491Q27676633-530916A9-5D03-4230-851A-629597A3624FQ28476187-29A67130-3304-4D4E-9613-AA30A3B2A00DQ28756561-978575B7-F76E-4295-B4BD-2753EB7B4DF0Q29615408-C933E33E-2E50-46F9-A2AD-93674893BD4BQ30479589-68B93930-2855-4B48-B86C-E73539438A0DQ30495140-0DC0BAE2-880A-4A1F-979E-E178398FDBEFQ31012447-F7F282B9-F48C-4C60-B3EF-F3A3707A671AQ33566434-F120862C-B9C1-461A-A34A-52E6592A66A6Q33755444-8358BEA5-3162-4722-9030-70F09843B539Q33778115-42BF9706-F5CA-49BB-A53D-9B92FA0F5DD7Q33783125-C87BE4A6-AB9F-44A8-ABF1-0FF9244DCA33Q34118142-0DB0B0F4-F85E-4464-A981-E50D041E81B4Q34186247-DE934F08-E77C-4925-A7D4-58E79D75765AQ34188664-63069CDC-E0C9-4F5A-B45B-C94A85FA2F7DQ34189280-226F3058-B8EC-42DF-B964-47CA0EF4355AQ34190132-87184CAB-9258-4CA8-83EC-6869895598CBQ34352331-8C8303C8-F77B-4185-80A8-DBE4FB0B2989Q34354149-D4E36BCC-9F4E-4BAB-B52E-0F3C9D6D663EQ34410781-630F4757-8E7A-42CA-8288-82A10219AD5FQ34452369-A4C43921-B382-4EE8-9A3F-0616C61C84C8Q34481643-C44B37D5-916D-428C-A933-70628890FC4FQ34555663-68FE1E3E-06AC-4041-A54B-ED02ADAAA2EBQ34829816-05C90E58-7522-423F-9179-3E89AFA63282Q34945246-90422D67-CEE4-4439-8D00-9FCA43C5044CQ35023850-728186E0-3108-4035-B416-CACE922EC6ABQ35052058-A499B127-2156-43BB-AA90-220388C920EAQ35129020-79552FD4-B8E0-4F2B-8EF8-46754502CFE4Q35221131-EF9AA470-9351-4A2A-A8AF-A21FA7FAADAFQ35616024-7F218E0E-AB8F-4C9A-8564-099E231D9337Q35769969-928C13ED-68AB-41A5-946F-4A2844A47A58Q35792744-049A37D0-3334-4D38-A5A3-CA62CEDE7007Q36058510-5E77E109-D0F9-440B-8C06-CFE02ED6E810Q36472758-B49B59E7-3914-45D5-B1A7-05633D26DDC7Q36561838-9ACDA9E5-8D30-4401-8E84-A7DAE8718878
P2860
Simulation and modeling of nucleic acid structure, dynamics and interactions.
description
2004 nî lūn-bûn
@nan
2004年の論文
@ja
2004年論文
@yue
2004年論文
@zh-hant
2004年論文
@zh-hk
2004年論文
@zh-mo
2004年論文
@zh-tw
2004年论文
@wuu
2004年论文
@zh
2004年论文
@zh-cn
name
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@ast
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@en
type
label
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@ast
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@en
prefLabel
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@ast
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@en
P1476
Simulation and modeling of nucleic acid structure, dynamics and interactions.
@en
P304
P356
10.1016/J.SBI.2004.05.001
P577
2004-06-01T00:00:00Z