Hashim M Al-Hashimi: search on Z-Library

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1

Inter-helical conformational preferences of HIV-1 TAR-RNA from maximum occurrence analysis of NMR data and molecular dynamics simulations

Andrałojć, Witold, Ravera, Enrico, Salmon, Loïc, Parigi, Giacomo, Al-Hashimi, Hashim M., Luchinat, Claudio

Journal:

Physical Chemistry Chemical Physics

Year:

2015

Language:

english

File:

PDF, 4.73 MB

english, 2015

2

Extending the Sensitivity of CEST to MicroâtoâMillisecond Dynamics in Nucleic Acids Using High Power RadioâFrequency Fields

Rangadurai, Atul, Shi, Honglue, Al-Hashimi, Hashim M.

Journal:

Angewandte Chemie International Edition

Year:

2020

Language:

english

File:

PDF, 1.26 MB

english, 2020

3

Hierarchy of RNA Functional Dynamics

Mustoe, Anthony M., Brooks, Charles L., Al-Hashimi, Hashim M.

Journal:

Annual Review of Biochemistry

Year:

2014

Language:

english

File:

PDF, 1.84 MB

english, 2014

4

The 5-oxyacetic acid modification destabilizes double helical stem structures and favors anionic Watson-Crick like cmo5U-G base pairs

Strebitzer, Elisabeth, Rangadurai, Atul, Plangger, Raphael, Kremser, Johannes, Juen, Michael Andreas, Tollinger, Martin, Al-Hashimi, Hashim, Kreutz, Christoph

Journal:

Chemistry - A European Journal

Year:

2018

Language:

english

File:

PDF, 1.09 MB

english, 2018

5

Advances in the Determination of Nucleic Acid Conformational Ensembles

Salmon, Loïc, Yang, Shan, Al-Hashimi, Hashim M.

Journal:

Annual Review of Physical Chemistry

Year:

2014

Language:

english

File:

PDF, 1.80 MB

english, 2014

6

Development and application of aromatic [13C,1H] SOFAST-HMQC NMR experiment for nucleic acids

Sathyamoorthy, Bharathwaj, Lee, Janghyun, Kimsey, Isaac, Ganser, Laura R., Al-Hashimi, Hashim

Journal:

Journal of Biomolecular NMR

Year:

2014

Language:

english

File:

PDF, 897 KB

english, 2014

7

Dynamic basis for dG•dT misincorporation via tautomerization and ionization

Kimsey, Isaac J., Szymanski, Eric S., Zahurancik, Walter J., Shakya, Anisha, Xue, Yi, Chu, Chia-Chieh, Sathyamoorthy, Bharathwaj, Suo, Zucai, Al-Hashimi, Hashim M.

Journal:

Year:

2018

Language:

english

File:

PDF, 8.18 MB

english, 2018

8

120 Role of dynamic base pair polymorphism in the central dogma of molecular biology

Kimsey, Isaac J., Zhou, Huiqing, Alvey, Heidi, Al-Hashimi, Hashim M.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2015

Language:

english

File:

PDF, 496 KB

english, 2015

9

Extending the Sensitivity of CEST to MicroâtoâMillisecond Dynamics in Nucleic Acids Using High Power RadioâFrequency Fields

Rangadurai, Atul, Shi, Honglue, Al-Hashimi, Hashim M.

Journal:

Angewandte Chemie

Year:

2020

File:

PDF, 1.26 MB

2020

10

Characterizing micro-to-millisecond chemical exchange in nucleic acids using off-resonance R1ρ relaxation dispersion

Rangadurai, Atul, Szymaski, Eric S., Kimsey, Isaac J., Shi, Honglue, Al-Hashimi, Hashim M.

Journal:

Progress in Nuclear Magnetic Resonance Spectroscopy

Year:

2019

File:

PDF, 7.16 MB

2019

11

Characterizing micro-to-millisecond chemical exchange in nucleic acids using off-resonance R1ρ relaxation dispersion

Rangadurai, Atul, Szymaski, Eric S., Kimsey, Isaac J., Shi, Honglue, Al-Hashimi, Hashim M.

Journal:

Progress in Nuclear Magnetic Resonance Spectroscopy

Year:

2019

Language:

english

File:

PDF, 7.16 MB

english, 2019

12

Increasing the length of poly-pyrimidine bulges broadens RNA conformational ensembles with minimal impact on stacking energetics

Merriman, Dawn K, Yuan, Jiayi, Shi, Honglue, Majumdar, Ananya, Herschlag, Daniel, Al-Hashimi, Hashim M

Journal:

Year:

2018

Language:

english

File:

PDF, 1.14 MB

english, 2018

13

Impact of static and dynamic A-form heterogeneity on the determination of RNA global structural dynamics using NMR residual dipolar couplings

Catherine Musselman, Stephen W. Pitt, Kush Gulati, Lesley L. Foster, Ioan Andricioaei, Hashim M. Al-Hashimi

Journal:

Journal of Biomolecular NMR

Year:

2006

Language:

english

File:

PDF, 476 KB

english, 2006

14

Utility of 1 H NMR Chemical Shifts in Determining RNA Structure and Dynamics

Frank, Aaron T., Horowitz, Scott, Andricioaei, Ioan, Al-Hashimi, Hashim M.

Journal:

Journal of Physical Chemistry B

Year:

2013

Language:

english

File:

PDF, 732 KB

english, 2013

15

The roles of structural dynamics in the cellular functions of RNAs

Ganser, Laura R., Kelly, Megan L., Herschlag, Daniel, Al-Hashimi, Hashim M.

Journal:

Nature Reviews Molecular Cell Biology

Year:

2019

Language:

english

File:

PDF, 2.06 MB

english, 2019

16

Beyond static structures of RNA by NMR: Folding, refolding, and dynamics at atomic resolution

Hashim M. Al-Hashimi

Journal:

Year:

2007

Language:

english

File:

PDF, 70 KB

english, 2007

17

Transient Hoogsteen base pairs in canonical duplex DNA

Nikolova, Evgenia N., Kim, Eunae, Wise, Abigail A., O’Brien, Patrick J., Andricioaei, Ioan, Al-Hashimi, Hashim M.

Journal:

Year:

2011

Language:

english

File:

PDF, 1.15 MB

english, 2011

18

An RNA Structural Ensemble Derived by Combining MD and Elongated NMR RDCs Provides Evidence for Adaptive Recognition via Conformational Selection

Frank, Aaron T., Stelzer, Andrew, Andricioaei, Ioan, Al-Hashimi, Hashim

Journal:

Biophysical Journal

Year:

2009

Language:

english

File:

PDF, 38 KB

english, 2009

19

Alignment of the HTLV−I Rex Peptide Bound to Its Target RNA Aptamer from Magnetic Field-Induced Residual Dipolar Couplings and Intermolecular Hydrogen Bonds

Al-Hashimi, Hashim M., Gorin, Andrey, Majumdar, Ananya, Patel, Dinshaw J.

Journal:

Journal of the American Chemical Society

Year:

2001

Language:

english

File:

PDF, 103 KB

english, 2001

20

Three RNA Microenvironments Detected in Fluxional Gene Delivery Polyplex Nanoassemblies

Shakya, Anisha, Al-Hashimi, Hashim M., Banaszak Holl, Mark. M.

Journal:

ACS Macro Letters

Year:

2016

Language:

english

File:

PDF, 1.33 MB

english, 2016

21

Variable helix elongation as a tool to modulate RNA alignment and motional couplings

Elizabeth A. Dethoff, Alexandar L. Hansen, Qi Zhang, Hashim M. Al-Hashimi

Journal:

Journal of Magnetic Resonance

Year:

2010

Language:

english

File:

PDF, 611 KB

english, 2010

22

Influence of Dimethylsulfoxide on RNA Structure and Ligand Binding

Lee, Janghyun, Vogt, Catherine E., McBrairty, Mitchell, Al-Hashimi, Hashim M.

Journal:

Analytical Chemistry

Year:

2013

Language:

english

File:

PDF, 1.80 MB

english, 2013

23

Manipulating Unconventional CH-Based Hydrogen Bonding in a Methyltransferase via Noncanonical Amino Acid Mutagenesis

Horowitz, Scott, Adhikari, Upendra, Dirk, Lynnette M. A., Del Rizzo, Paul A., Mehl, Ryan A., Houtz, Robert L., Al-Hashimi, Hashim M., Scheiner, Steve, Trievel, Raymond C.

Journal:

ACS Chemical Biology

Year:

2014

Language:

english

File:

PDF, 956 KB

english, 2014

24

Referencing Strategy for the Direct Comparison of Nuclear Magnetic Resonance and Molecular Dynamics Motional Parameters in RNA

Musselman, Catherine, Zhang, Qi, Al-Hashimi, Hashim, Andricioaei, Ioan

Journal:

Journal of Physical Chemistry B

Year:

2010

Language:

english

File:

PDF, 2.60 MB

english, 2010

25

Editorial overview: Nucleic acids and their protein complexes: Progress in nucleic acid structural biology: new technologies and discoveries

Allain, Frédéric H-T, Al-Hashimi, Hashim M

Journal:

Current Opinion in Structural Biology

Year:

2015

Language:

english

File:

PDF, 122 KB

english, 2015

26

Why are Hoogsteen base pairs energetically disfavored in A-RNA compared to B-DNA?

Rangadurai, Atul, Zhou, Huiqing, Merriman, Dawn K, Meiser, Nathalie, Liu, Bei, Shi, Honglue, Szymanski, Eric S, Al-Hashimi, Hashim M

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 2.24 MB

english, 2018

27

NMR Dissection of the Detailed Mechanism for Antibiotic Binding to Asite RNA

Chugh, Jeetender, Casiano-Negroni, Anette, Al-Hashimi, Hashim M.

Journal:

Biophysical Journal

Year:

2011

Language:

english

File:

PDF, 58 KB

english, 2011

28

Coarse Grained Models Reveal Essential Contributions of Topological Constraints to the Conformational Free Energy of RNA Bulges

Mustoe, Anthony M., Al-Hashimi, Hashim M., Brooks, Charles L.

Journal:

Journal of Physical Chemistry B

Year:

2014

Language:

english

File:

PDF, 2.12 MB

english, 2014

29

Dynamic Motions of the HIV-1 Frameshift Site RNA

Mouzakis, Kathryn D., Dethoff, Elizabeth A., Tonelli, Marco, Al-Hashimi, Hashim, Butcher, Samuel E.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 1.61 MB

english, 2015

30

Rapid Exchange Between Free and Bound States in RNA–Dendrimer Polyplexes: Implications on the Mechanism of Delivery and Release

Shakya, Anisha, Dougherty, Casey A., Xue, Yi, Al-Hashimi, Hashim M., Banaszak Holl, Mark M.

Journal:

Biomacromolecules

Year:

2015

Language:

english

File:

PDF, 2.74 MB

english, 2015

31

Residual dipolar couplings: Synergy between NMR and structural genomics

Hashim M. Al-Hashimi, Dinshaw J. Patel

Journal:

Journal of Biomolecular NMR

Year:

2002

Language:

english

File:

PDF, 92 KB

english, 2002

32

Concerted motions in HIV-1 TAR RNA may allow access to bound state conformations: RNA dynamics from NMR residual dipolar couplings

Hashim M Al-Hashimi, Yuying Gosser, Andrey Gorin, Weidong Hu, Ananya Majumdar, Dinshaw J Patel

Journal:

Journal of Molecular Biology

Year:

2002

Language:

english

File:

PDF, 371 KB

english, 2002

33

Conformational Analysis of a Flexible Oligosaccharide Using Residual Dipolar Couplings

Tian, Fang, Al-Hashimi, Hashim M., Craighead, John L., Prestegard, James H.

Journal:

Journal of the American Chemical Society

Year:

2001

Language:

english

File:

PDF, 167 KB

english, 2001

34

Sequence-Specific B-DNA Flexibility Modulates Z-DNA Formation

Bothe, Jameson R., Lowenhaupt, Ky, Al-Hashimi, Hashim M.

Journal:

Journal of the American Chemical Society

Year:

2011

Language:

english

File:

PDF, 1.06 MB

english, 2011

35

Unveiling Inherent Degeneracies in Determining Population-Weighted Ensembles of Interdomain Orientational Distributions Using NMR Residual Dipolar Couplings: Application to RNA Helix Junction Helix Motifs

Yang, Shan, Al-Hashimi, Hashim M.

Journal:

Journal of Physical Chemistry B

Year:

2015

Language:

english

File:

PDF, 2.17 MB

english, 2015

36

HIV-1 leader RNA dimeric interface revealed by NMR

Ganser, Laura R., Al-Hashimi, Hashim M.

Journal:

Proceedings of the National Academy of Sciences

Year:

2016

Language:

english

File:

PDF, 596 KB

english, 2016

37

Modulation of Hoogsteen dynamics on DNA recognition

Xu, Yu, McSally, James, Andricioaei, Ioan, Al-Hashimi, Hashim M.

Journal:

Nature Communications

Year:

2018

Language:

english

File:

PDF, 2.44 MB

english, 2018

38

Characterizing Complex Dynamics in the Transactivation Response Element Apical Loop and Motional Correlations with the Bulge by NMR, Molecular Dynamics, and Mutagenesis

Dethoff, Elizabeth A., Hansen, Alexandar L., Musselman, Catherine, Watt, Eric D., Andricioaei, Ioan, Al-Hashimi, Hashim M.

Journal:

Biophysical Journal

Year:

2008

Language:

english

File:

PDF, 574 KB

english, 2008

39

Incorporation of CC Steps into Z-DNA: Interplay between B–Z Junction and Z-DNA Helical Formation

Bothe, Jameson R., Lowenhaupt, Ky, Al-Hashimi, Hashim M.

Journal:

Year:

2012

Language:

english

File:

PDF, 3.09 MB

english, 2012

40

Insights into Watson–Crick/Hoogsteen breathing dynamics and damage repair from the solution structure and dynamic ensemble of DNA duplexes containing m1A

Sathyamoorthy, Bharathwaj, Shi, Honglue, Zhou, Huiqing, Xue, Yi, Rangadurai, Atul, Merriman, Dawn K., Al-Hashimi, Hashim M.

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 9.26 MB

english, 2017

41

m6A minimally impacts the structure, dynamics, and Rev ARM binding properties of HIV-1 RRE stem IIB

Chu, Chia-Chieh, Liu, Bei, Plangger, Raphael, Kreutz, Christoph, Al-Hashimi, Hashim M., Sztuba-Solinska, Joanna

Journal:

Year:

2019

File:

PDF, 1.74 MB

2019

42

Characterizing the relative orientation and dynamics of RNA A-form helices using NMR residual dipolar couplings

Bailor, Maximillian H, Musselman, Catherine, Hansen, Alexandar L, Gulati, Kush, Patel, Dinshaw J, Al-Hashimi, Hashim M

Journal:

Nature Protocols

Year:

2007

Language:

english

File:

PDF, 489 KB

english, 2007

43

RNA dynamics: it is about time

Hashim M Al-Hashimi, Nils G Walter

Journal:

Current Opinion in Structural Biology

Year:

2008

Language:

english

File:

PDF, 1.63 MB

english, 2008

44

Extending the Range of Microsecond-to-Millisecond Chemical Exchange Detected in Labeled and Unlabeled Nucleic Acids by Selective Carbon R 1ρ NMR Spectroscopy

Hansen, Alexandar L., Nikolova, Evgenia N., Casiano-Negroni, Anette, Al-Hashimi, Hashim M.

Journal:

Journal of the American Chemical Society

Year:

2009

Language:

english

File:

PDF, 502 KB

english, 2009

45

Visualizing the formation of an RNA folding intermediate through a fast highly modular secondary structure switch

Xue, Yi, Gracia, Brant, Herschlag, Daniel, Russell, Rick, Al-Hashimi, Hashim M.

Journal:

Nature Communications

Year:

2016

Language:

english

File:

PDF, 1.13 MB

english, 2016

46

Hidden Structural Modules in a Cooperative RNA Folding Transition

Gracia, Brant, Al-Hashimi, Hashim M., Bisaria, Namita, Das, Rhiju, Herschlag, Daniel, Russell, Rick

Journal:

Year:

2018

Language:

english

File:

PDF, 4.29 MB

english, 2018

47

Water-Mediated Carbon-Oxygen Hydrogen Bonding Facilitates AdoMet Recognition in the Reactivation Domain of Cobalamin-dependent Methionine Synthase

Fick, Robert J., Clay, Mary C, Vander Lee, Lucas, Scheiner, Steve, Al-Hashimi, Hashim M., Trievel, Raymond C.

Journal:

Year:

2018

Language:

english

File:

PDF, 1.19 MB

english, 2018

48

Visualizing Base Opening in Nucleic Acid Duplexes

Shi, Honglue, Liu, Bei, Rangadurai, Atul, Clay, Mary, Kreutz, Christoph, Al-Hashimi, Hashim

Journal:

Biophysical Journal

Year:

2019

File:

PDF, 46 KB

2019

49

Infrared spectroscopic observation of a G-C+ Hoogsteen base pair in the DNA:TATA box binding protein complex under solution conditions

Stelling, Allison L., Liu, Amy Y., Zeng, Wenjie, Salinas, Raul, Schumacher, Maria A., Al-Hashimi, Hashim M.

Journal:

Angewandte Chemie International Edition

Year:

2019

Language:

english

File:

PDF, 2.68 MB

english, 2019

50

Environmental Effects on Guanine-Thymine Mispair Tautomerization Explored with Quantum Mechanical/Molecular Mechanical Free Energy Simulations

Li, Pengfei, Rangadurai, Atul, Al-Hashimi, Hashim M., Hammes-Schiffer, Sharon

Journal:

Journal of the American Chemical Society

Year:

2020

File:

PDF, 1.60 MB

2020

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