NDLI: Water at DNA surfaces: ultrafast dynamics in minor groove recognition.

Please wait, while we are loading the content...

Year: 2017 Volume: 114

Year: 2016 Volume: 113

Year: 2015 Volume: 112

Year: 2014 Volume: 111

Year: 2013 Volume: 110

Year: 2012 Volume: 109

Year: 2011 Volume: 108

Year: 2010 Volume: 107

Year: 2009 Volume: 106

Year: 2008 Volume: 105

Year: 2007 Volume: 104

Year: 2006 Volume: 103

Year: 2005 Volume: 102

Year: 2004 Volume: 101

Year: 2003 Volume: 100

Year: 2003 Volume: 100 Issue: 26

Year: 2003 Volume: 100 Issue: 25

Year: 2003 Volume: 100 Issue: 24

Year: 2003 Volume: 100 Issue: 23

Year: 2003 Volume: 100 Issue: 22

Year: 2003 Volume: 100 Issue: 21

Year: 2003 Volume: 100 Issue: 20

Year: 2003 Volume: 100 Issue: 19

Year: 2003 Volume: 100 Issue: 18

Year: 2003 Volume: 100 Issue: 17

Year: 2003 Volume: 100 Issue: 16

Year: 2003 Volume: 100 Issue: 15

Year: 2003 Volume: 100 Issue: 14

Knowledge systems for sustainable development.

A framework for vulnerability analysis in sustainability science.

Sustainability science: the emerging research program.

Single-nucleotide polymorphisms and genome diversity in Plasmodium vivax.

Blockade of advanced glycation end-product formation restores ischemia-induced angiogenesis in diabetic mice.

A global transcriptional regulatory role for c-Myc in Burkitt's lymphoma cells.

Differential effects of ethanol antagonism and neuroprotection in peptide fragment NAPVSIPQ prevention of ethanol-induced developmental toxicity.

Transforming growth factor beta signaling impairs Neu-induced mammary tumorigenesis while promoting pulmonary metastasis.

A mechanism of covalent substrate binding in the x-ray structure of subunit K of the Escherichia coli dihydroxyacetone kinase.

The RNA-protein complex: direct probing of the interfacial recognition dynamics and its correlation with biological functions.

Water at DNA surfaces: ultrafast dynamics in minor groove recognition.

Neandertal faces were not long; modern human faces are short.

Mesenchymal stem cell engraftment in lung is enhanced in response to bleomycin exposure and ameliorates its fibrotic effects.

Loss of chloride channel ClC-5 impairs endocytosis by defective trafficking of megalin and cubilin in kidney proximal tubules.

R5 HIV productively infects Langerhans cells, and infection levels are regulated by compound CCR5 polymorphisms.

A SNARE complex containing SGR3/AtVAM3 and ZIG/VTI11 in gravity-sensing cells is important for Arabidopsis shoot gravitropism.

Elucidation of the molecular logic by which misfolded alpha 1-antitrypsin is preferentially selected for degradation.

Glycation of the amyloid beta-protein by a nicotine metabolite: a fortuitous chemical dynamic between smoking and Alzheimer's disease.

Reversal of age-related learning deficits and brain oxidative stress in mice with superoxide dismutase/catalase mimetics.

Analysis of the distributed computing approach applied to the folding of a small beta peptide.

Genomic transcriptional profiling of the developmental cycle of Chlamydia trachomatis.

Illustrating the coupled human-environment system for vulnerability analysis: three case studies.

Identification of the beta cell antigen targeted by a prevalent population of pathogenic CD8+ T cells in autoimmune diabetes.

Nur77 as a survival factor in tumor necrosis factor signaling.

Conservation of genome content and virulence determinants among clinical and environmental isolates of Pseudomonas aeruginosa.

On the mechanism of chaperone activity of the small heat-shock protein of Methanococcus jannaschii.

A Pseudomonas syringae type III effector suppresses cell wall-based extracellular defense in susceptible Arabidopsis plants.

Unique amino acids cluster for switching from the dehydrogenase to oxidase form of xanthine oxidoreductase.

Characterizing a sustainability transition: goals, targets, trends, and driving forces.

Specific protein redirection as a transcriptional therapy approach for t(8;21) leukemia.

The substrate specificity-determining amino acid code of 4-coumarate:CoA ligase.

Crystal structure of LpxC, a zinc-dependent deacetylase essential for endotoxin biosynthesis.

The Sahara as a vicariant agent, and the role of Miocene climatic events, in the diversification of the mammalian order Macroscelidea (elephant shrews).

The lethal effects of transplantation of $Socs1^{-/-}$ bone marrow cells into irradiated adult syngeneic recipients

Directed nucleation assembly of DNA tile complexes for barcode-patterned lattices.

phot1 and phot2 mediate blue light-induced transient increases in cytosolic $Ca^{2+}$ differently in Arabidopsis leaves

The first half-century of nuclear transplantation.

Mdm2-dependent ubiquitination and degradation of the insulin-like growth factor 1 receptor.

RNA-binding protein HuR enhances p53 translation in response to ultraviolet light irradiation.

Human papillomavirus E6 and Myc proteins associate in vivo and bind to and cooperatively activate the telomerase reverse transcriptase promoter.

Ba2LnSbO6 and Sr2LnSbO6 (Ln = Dy, Ho, Gd) double perovskites: lanthanides in the geometrically frustrating fcc lattice.

Dynamics of the Neoproterozoic carbon cycle.

The matrix-valued hypergeometric equation.

Neural correlates of interindividual differences in the subjective experience of pain.

Activation of innate immunity in the CNS triggers neurodegeneration through a Toll-like receptor 4-dependent pathway.

Regulatory CD8+ T cells fine-tune the myelin basic protein-reactive T cell receptor V beta repertoire during experimental autoimmune encephalomyelitis.

A homologue of elongation factor 1 gamma regulates methionine sulfoxide reductase A gene expression in Saccharomyces cerevisiae.

Evolutionary genomics of inversions in Drosophila pseudoobscura: evidence for epistasis.

Fluorescence bleaching reveals asymmetric compartment formation prior to cell division in Caulobacter.

Neural and mammary gland defects in ErbB4 knockout mice genetically rescued from embryonic lethality.

Nef increases the synthesis of and transports cholesterol to lipid rafts and HIV-1 progeny virions.

Molecular analysis of the evolutionary significance of ultraviolet vision in vertebrates.

Cancer regression and autoimmunity induced by cytotoxic T lymphocyte-associated antigen 4 blockade in patients with metastatic melanoma.

Glucose-6-phosphate isomerase is necessary for embryo implantation in the domestic ferret.

Promotion of G alpha i3 subunit down-regulation by GIPN, a putative E3 ubiquitin ligase that interacts with RGS-GAIP.

Use of in vivo-induced antigen technology (IVIAT) to identify genes uniquely expressed during human infection with Vibrio cholerae

Understanding the function-structure and function-mutation relationships of p53 tumor suppressor protein by high-resolution missense mutation analysis.

The human Bloom syndrome gene suppresses the DNA replication and repair defects of yeast dna2 mutants.

ERK5 activation of MEF2-mediated gene expression plays a critical role in BDNF-promoted survival of developing but not mature cortical neurons

Divergence of the genes on human chromosome 21 between human and other hominoids and variation of substitution rates among transcription units.

Inhibiting expression of specific genes in mammalian cells with 5' end-mutated U1 small nuclear RNAs targeted to terminal exons of pre-mRNA.

Evolutionary deterioration of the vomeronasal pheromone transduction pathway in catarrhine primates.

Asymmetric localization of flotillins/reggies in preassembled platforms confers inherent polarity to hematopoietic cells.

Quantitative modeling of sensitivity in bacterial chemotaxis: the role of coupling among different chemoreceptor species.

The F-box-containing protein UFO and AGAMOUS participate in antagonistic pathways governing early petal development in Arabidopsis.

A functional genomics approach toward the understanding of secondary metabolism in plant cells.

A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae).

Disruption of the imprinted Grb10 gene leads to disproportionate overgrowth by an Igf2-independent mechanism.

MLL repression domain interacts with histone deacetylases, the polycomb group proteins HPC2 and BMI-1, and the corepressor C-terminal-binding protein

Human cerebrospinal fluid central memory CD4+ T cells: evidence for trafficking through choroid plexus and meninges via P-selectin.

Angiotensin-(1-7) is an endogenous ligand for the G protein-coupled receptor Mas.

SLC5A8, a sodium transporter, is a tumor suppressor gene silenced by methylation in human colon aberrant crypt foci and cancers.

Human topoisomerase I promotes HIV-1 proviral DNA synthesis: implications for the species specificity and cellular tropism of HIV-1 infection.

Mouse V alpha 14i natural killer T cells are resistant to cytokine polarization in vivo.

Male-specific lethal complex of Drosophila targets activated regions of the X chromosome for chromatin remodeling.

A neuronal network model linking subjective reports and objective physiological data during conscious perception.

Long-term trends and a sustainability transition.

Inhibition of bacterial DNA replication by zinc mobilization during nitrosative stress.

Repeated observation of breast tumor subtypes in independent gene expression data sets.

Nonvolatile read-out molecular memory.

Mixed Markov models.

Lie superalgebras graded by Pn and Qn.

Optimization of protease-inhibitor interactions by randomizing adventitious contacts

Coordinated reduction of genes of oxidative metabolism in humans with insulin resistance and diabetes: Potential role of PGC1 and NRF1.

Identification of the lambda integrase surface that interacts with Xis reveals a residue that is also critical for Int dimer formation.

Factors modulating conformational equilibria in large modular proteins: a case study with cobalamin-dependent methionine synthase.

Dynamic, yet structured: The cell membrane three decades after the Singer-Nicolson model.

A major role for carbon monoxide as an endogenous hyperpolarizing factor in the gastrointestinal tract.

Birds defend trees from herbivores in a Neotropical forest canopy.

Functional reconstitution of COPI coat assembly and disassembly using chemically defined components.

Mutations in the clathrin-assembly gene Picalm are responsible for the hematopoietic and iron metabolism abnormalities in fit1 mice.

Lytic but not latent infection by Kaposi's sarcoma-associated herpesvirus requires host CSL protein, the mediator of Notch signaling.

TNF-alpha neutralization ameliorates the severity of murine Crohn's-like ileitis by abrogation of intestinal epithelial cell apoptosis.

Does a betaretrovirus infection trigger primary biliary cirrhosis?

The first tunicate from the Early Cambrian of South China.

Complete genome sequence of the marine planctomycete Pirellula sp. strain 1.

Sialorphin, a natural inhibitor of rat membrane-bound neutral endopeptidase that displays analgesic activity.

Chlamydia uncloaked.

Paleomolecular biology unravels the evolutionary mystery of vertebrate UV vision.

Linking acquired neurodevelopmental disorders to defects in cell adhesion.

Webcasting is not publication.

Year: 2003 Volume: 100 Issue: 13

Year: 2003 Volume: 100 Issue: 12

Year: 2003 Volume: 100 Issue: 11

Year: 2003 Volume: 100 Issue: 10

Year: 2003 Volume: 100 Issue: 9

Year: 2003 Volume: 100 Issue: 8

Year: 2003 Volume: 100 Issue: 7

Year: 2003 Volume: 100 Issue: 6

Year: 2003 Volume: 100 Issue: 5

Year: 2003 Volume: 100 Issue: 4

Year: 2003 Volume: 100 Issue: 3

Year: 2003 Volume: 100 Issue: 2

Year: 2003 Volume: 100 Issue: Suppl 2

Year: 2003 Volume: 100 Issue: 1

Year: 2003 Volume: 100 Issue: Suppl 1

Year: 2002 Volume: 99

Year: 2001 Volume: 98

Year: 2000 Volume: 97

Year: 1999 Volume: 96

Year: 1998 Volume: 95

Year: 1997 Volume: 94

Year: 1996 Volume: 93

Year: 1995 Volume: 92

Year: 1994 Volume: 91

Year: 1993 Volume: 90

Year: 1992 Volume: 89

Year: 1991 Volume: 88

Year: 1990 Volume: 87

Year: 1989 Volume: 86

Year: 1988 Volume: 85

Year: 1987 Volume: 84

Year: 1986 Volume: 83

Year: 1985 Volume: 82

Year: 1984 Volume: 81

Year: 1983 Volume: 80

Year: 1982 Volume: 79

Year: 1981 Volume: 78

Year: 1980 Volume: 77

Year: 1979 Volume: 76

Year: 1978 Volume: 75

Year: 1977 Volume: 74

Year: 1976 Volume: 73

Year: 1975 Volume: 72

Year: 1974 Volume: 71

Year: 1973 Volume: 70

Year: 1972 Volume: 69

Year: 1971 Volume: 68

Year: 1970 Volume: 67

Year: 1970 Volume: 66

Year: 1970 Volume: 65

Year: 1969 Volume: 64

Year: 1969 Volume: 63

Year: 1969 Volume: 62

Year: 1968 Volume: 61

Year: 1968 Volume: 60

Year: 1968 Volume: 59

Year: 1967 Volume: 58

Year: 1967 Volume: 57

Year: 1966 Volume: 56

Year: 1966 Volume: 55

Water at DNA surfaces: ultrafast dynamics in minor groove recognition.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Pal, Samir Kumar Zhao, Liang Zewail, Ahmed H.
Description	Author Affiliation: Pal SK ( Laboratory for Molecular Sciences, Arthur Amos Noyes Laboratory of Chemical Physics, California Institute of Technology, Pasadena, CA 91125, USA.);
Abstract	Water molecules at the surface of DNA are critical to its equilibrium structure, DNA-protein function, and DNA-ligand recognition. Here we report direct probing of the dynamics of hydration, with femtosecond resolution, at the surface of a DNA dodecamer duplex whose native structure remains unperturbed on recognition in minor groove binding with the bisbenzimide drug (Hoechst 33258). By following the temporal evolution of fluorescence, we observed two well separated hydration times, 1.4 and 19 ps, whereas in bulk water the same drug is hydrated with time constants of 0.2 and 1.2 ps. For comparison, we also studied calf thymus DNA for which the hydration exhibits similar time scales to that of dodecamer DNA. However, the time-resolved polarization anisotropy is very different for the two types of DNA and clearly elucidates the rigidity in drug binding and difference in DNA rotational motions. These results demonstrate that hydration at the surface of the groove is a dynamical process with two general types of trajectories; the slowest of them (approximately 20 ps) are those describing dynamically ordered water. Because of their ultrafast time scale, the 'ordered' water molecules are the most weakly bound and are accordingly involved in the entropic (hydration/dehydration) process of recognition.
ISSN	00278424
e-ISSN	10916490
Journal	Proceedings of the National Academy of Sciences of the United States of America
Issue Number	14
Volume Number	100
Language	English
Publisher	National Academy of Sciences
Publisher Date	2003-07-01
Publisher Place	United States
Access Restriction	Open
Subject Keyword	DNA Chemistry Animals Anti-Infective Agents Binding Sites Bisbenzimidazole Crystallography, X-Ray Fluorescent Dyes Hydrogen Bonding Models, Molecular Nucleic Acid Conformation Spectrometry, Fluorescence Comparative Study Research Support, U.S. Gov't, Non-P.H.S. Multidisciplinary
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

Central Library (ISO-9001:2015 Certified)
Indian Institute of Technology Kharagpur
Kharagpur, West Bengal, India | PIN - 721302

See location in the Map
03222 282435
Mail: support@ndl.gov.in

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in