Works by Al-Hashimi, Hashim M

Results: 60

An A‐T Hoogsteen Base Pair in a Naked DNA Hairpin Motif: A Protein‐Recognized Conformation.

Published in:

Angewandte Chemie International Edition, 2025, v. 64, n. 25, p. 1, doi. 10.1002/anie.202425067

By:

Guseva, Serafima;
Szekely, Or;
Geng, Ainan;
Smith, Kai;
Pratihar, Supriya;
Lee, Yeongjoon;
Li, Linshu;
Korn, Sophie M.;
Gu, Stephanie;
Al‐Hashimi, Hashim M.

Publication type:

Article

An A‐T Hoogsteen Base Pair in a Naked DNA Hairpin Motif: A Protein‐Recognized Conformation.

Published in:

Angewandte Chemie, 2025, v. 137, n. 25, p. 1, doi. 10.1002/ange.202425067

By:

Guseva, Serafima;
Szekely, Or;
Geng, Ainan;
Smith, Kai;
Pratihar, Supriya;
Lee, Yeongjoon;
Li, Linshu;
Korn, Sophie M.;
Gu, Stephanie;
Al‐Hashimi, Hashim M.

Publication type:

Article

A historical account of hoogsteen base-pairs in duplex DNA.

Published in:

Biopolymers, 2013, v. 99, n. 12, p. 955, doi. 10.1002/bip.22334

By:

Nikolova, Evgenia N.;
Zhou, Huiqing;
Gottardo, Federico L.;
Alvey, Heidi S.;
Kimsey, Isaac J.;
Al‐Hashimi, Hashim M.

Publication type:

Article

NMR studies of an immunomodulatory benzodiazepine binding to its molecular target on the mitochondrial F1F0-ATPase.

Published in:

Biopolymers, 2010, v. 93, n. 1, p. 85, doi. 10.1002/bip.21306

By:

Stelzer, Andrew C.;
Frazee, Richard W.;
Van Huis, Chad;
Cleary, Joanne;
Opipari, Anthony W.;
Glick, Gary D.;
Al-Hashimi, Hashim M.

Publication type:

Article

Rapid assessment of Watson-Crick to Hoogsteen exchange in unlabeled DNA duplexes using high-power SELOPE imino ¹H CEST.

Published in:

Magnetic Resonance, 2021, v. 2, n. 2, p. 715, doi. 10.5194/mr-2-715-2021

By:

Bei Liu;
Rangadurai, Atul;
Honglue Shi;
Al-Hashimi, Hashim M.

Publication type:

Article

Evidence that Electrostatic Interactions Dictate the Ligand-Induced Arrest of RNA Global FlexibilityWe thank Prof. H. Schwalbe, Dr. J. Wöhnert (University of Frankfurt), Dr. A. Phân (MSKCC), and Prof. O. Yaghi (University of Michigan) for stimulating discussions. H.M.A. was a visiting professor supported by SFB 579 at the University of Frankfurt in the group of H. Schwalbe during part of this work. D.J.P. acknowledges funding from the NIH (CA46778).

Published in:

Angewandte Chemie International Edition, 2005, v. 44, n. 22, p. 3412, doi. 10.1002/anie.200500075

By:

Stephen W. Pitt;
Qi Zhang;
Dinshaw J. Patel;
Hashim M. Al-Hashimi

Publication type:

Article

5‐Oxyacetic Acid Modification Destabilizes Double Helical Stem Structures and Favors Anionic Watson–Crick like cmo5U‐G Base Pairs.

Published in:

Chemistry - A European Journal, 2018, v. 24, n. 71, p. 18903, doi. 10.1002/chem.201805077

By:

Strebitzer, Elisabeth;
Rangadurai, Atul;
Plangger, Raphael;
Kremser, Johannes;
Juen, Michael Andreas;
Tollinger, Martin;
Al‐Hashimi, Hashim M.;
Kreutz, Christoph

Publication type:

Article

Review NMR studies of RNA dynamics and structural plasticity using NMR residual dipolar couplings.

Published in:

Biopolymers, 2007, v. 86, n. 5/6, p. 384, doi. 10.1002/bip.20765

By:

Getz, Melissa;
Sun, Xiaoyan;
Casiano-Negroni, Anette;
Zhang, Qi;
Al-Hashimi, Hashim M.

Publication type:

Article

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

Published in:

Biopolymers, 2007, v. 86, n. 5/6, p. 345, doi. 10.1002/bip.20754

By:

Al-Hashimi, Hashim M.

Publication type:

Article

A quantitative model predicts how m6A reshapes the kinetic landscape of nucleic acid hybridization and conformational transitions.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25253-8

By:

Liu, Bei;
Shi, Honglue;
Rangadurai, Atul;
Nussbaumer, Felix;
Chu, Chia-Chieh;
Erharter, Kevin Andreas;
Case, David A.;
Kreutz, Christoph;
Al-Hashimi, Hashim M.

Publication type:

Article

Probing conformational transitions towards mutagenic Watson–Crick-like G·T mismatches using off-resonance sugar carbon R1ρ relaxation dispersion.

Published in:

Journal of Biomolecular NMR, 2020, v. 74, n. 8/9, p. 457, doi. 10.1007/s10858-020-00337-7

By:

Rangadurai, Atul;
Szymanski, Eric S.;
Kimsey, Isaac;
Shi, Honglue;
Al-Hashimi, Hashim M.

Publication type:

Article

Atomic structures of excited state A-T Hoogsteen base pairs in duplex DNA by combining NMR relaxation dispersion, mutagenesis, and chemical shift calculations.

Published in:

Journal of Biomolecular NMR, 2018, v. 70, n. 4, p. 229, doi. 10.1007/s10858-018-0177-2

By:

Shi, Honglue;
Clay, Mary C.;
Rangadurai, Atul;
Sathyamoorthy, Bharathwaj;
Case, David A.;
Al-Hashimi, Hashim M.

Publication type:

Article

Residual dipolar couplings: Synergy between NMR and structural genomics.

Published in:

2002

By:

Al-Hashimi, Hashim M.;
Patel, Dinshaw J.

Publication type:

Other

A potentially abundant junctional RNA motif stabilized by m6A and Mg2+.

Published in:

Nature Communications, 2018, v. 9, p. 1, doi. 10.1038/s41467-018-05243-z

By:

Bei Liu;
Merriman, Dawn K.;
Choi, Seung H.;
Schumacher, Maria A.;
Plangger, Raphael;
Kreutz, Christoph;
Horner, Stacy M.;
Al-Hashimi, Hashim M.

Publication type:

Article

Modulation of Hoogsteen dynamics on DNA recognition.

Published in:

Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-03516-1

By:

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

Publication type:

Article

Cover Picture: Dynamics-Based Amplification of RNA Function and Its Characterization by Using NMR Spectroscopy (ChemBioChem 9/2005).

Published in:

ChemBioChem, 2005, v. 6, n. 9, p. 1472, doi. 10.1002/cbic.200590028

By:

Hashim M. Al-Hashimi

Publication type:

Article

Dynamics-Based Amplification of RNA Function and Its Characterization by Using NMR Spectroscopy.

Published in:

ChemBioChem, 2005, v. 6, n. 9, p. 1506, doi. 10.1002/cbic.200500002

By:

Hashim M. Al-Hashimi

Publication type:

Article

Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-19371-y

By:

Shi, Honglue;
Rangadurai, Atul;
Abou Assi, Hala;
Roy, Rohit;
Case, David A.;
Herschlag, Daniel;
Yesselman, Joseph D.;
Al-Hashimi, Hashim M.

Publication type:

Article

Robust IR-based detection of stable and fractionally populated G-C+ and A-T Hoogsteen base pairs in duplex DNA.

Published in:

FEBS Letters, 2017, v. 591, n. 12, p. 1770, doi. 10.1002/1873-3468.12681

By:

Stelling, Allison L.;
Xu, Yu;
Zhou, Huiqing;
Choi, Seung H.;
Clay, Mary C.;
Merriman, Dawn K.;
Al-Hashimi, Hashim M.

Publication type:

Article

Measuring similarity between dynamic ensembles of biomolecules.

Published in:

Nature Methods, 2014, v. 11, n. 5, p. 552, doi. 10.1038/nmeth.2921

By:

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

Publication type:

Article

Characterizing RNA dynamics at atomic resolution using solution-state NMR spectroscopy.

Published in:

Nature Methods, 2011, v. 8, n. 11, p. 919, doi. 10.1038/nmeth.1735

By:

Bothe, Jameson R;
Nikolova, Evgenia N;
Eichhorn, Catherine D;
Chugh, Jeetender;
Hansen, Alexandar L;
Al-Hashimi, Hashim M

Publication type:

Article

Extending the NMR spatial resolution limit for RNA by motional couplings.

Published in:

Nature Methods, 2008, v. 5, n. 3, p. 243, doi. 10.1038/nmeth.1180

By:

Qi Zhang;
Al-Hashimi, Hashim M.

Publication type:

Article

Extending the Sensitivity of CEST NMR Spectroscopy to Micro‐to‐Millisecond Dynamics in Nucleic Acids Using High‐Power Radio‐Frequency Fields.

Published in:

Angewandte Chemie, 2020, v. 132, n. 28, p. 11358, doi. 10.1002/ange.202000493

By:

Rangadurai, Atul;
Shi, Honglue;
Al‐Hashimi, Hashim M.

Publication type:

Article

Infrared Spectroscopic Observation of a G–C+ Hoogsteen Base Pair in the DNA:TATA‐Box Binding Protein Complex Under Solution Conditions.

Published in:

Angewandte Chemie, 2019, v. 131, n. 35, p. 12138, doi. 10.1002/ange.201902693

By:

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

Publication type:

Article

NMR measurements of transient low-populated tautomeric and anionic Watson–Crick-like G·T/U in RNA:DNA hybrids: implications for the fidelity of transcription and CRISPR/Cas9 gene editing.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 5, p. 2672, doi. 10.1093/nar/gkae027

By:

Szekely, Or;
Rangadurai, Atul Kaushik;
Gu, Stephanie;
Manghrani, Akanksha;
Guseva, Serafima;
Al-Hashimi, Hashim M

Publication type:

Article

Revealing A-T and G-C Hoogsteen base pairs in stressed protein-bound duplex DNA.

Published in:

Nucleic Acids Research, 2021, v. 49, n. 21, p. 12540, doi. 10.1093/nar/gkab936

By:

Shi, Honglue;
Kimsey, Isaac J;
Gu, Stephanie;
Liu, Hsuan-Fu;
Pham, Uyen;
Schumacher, Maria A;
Al-Hashimi, Hashim M

Publication type:

Article

2′-O-Methylation can increase the abundance and lifetime of alternative RNA conformational states.

Published in:

Nucleic Acids Research, 2020, v. 48, n. 21, p. 12365, doi. 10.1093/nar/gkaa928

By:

Abou Assi, Hala;
Rangadurai, Atul K;
Shi, Honglue;
Liu, Bei;
Clay, Mary C;
Erharter, Kevin;
Kreutz, Christoph;
Holley, Christopher L;
Al-Hashimi, Hashim M

Publication type:

Article

Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev-binding site.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 13, p. 7105, doi. 10.1093/nar/gkz498

By:

Chu, Chia-Chieh;
Plangger, Raphael;
Kreutz, Christoph;
Al-Hashimi, Hashim M

Publication type:

Article

RRM of the kRNA-editing protein TbRGG2 uses multiple surfaces to bind and remodel RNA.

Published in:

Nucleic Acids Research, 2019, v. 47, n. 4, p. 2130, doi. 10.1093/nar/gky1259

By:

Travis, Brady;
Shaw, Porsha L R;
Liu, Bei;
Ravindra, Krishna;
Iliff, Hadley;
Al-Hashimi, Hashim M;
Schumacher, Maria A

Publication type:

Article

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

Published in:

Nucleic Acids Research, 2018, v. 46, n. 20, p. 11099, doi. 10.1093/nar/gky885

By:

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

Publication type:

Article

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

Published in:

Nature Communications, 2016, v. 7, n. 6, p. 11768, doi. 10.1038/ncomms11768

By:

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

Publication type:

Article

Widespread transient Hoogsteen base pairs in canonical duplex DNA with variable energetics.

Published in:

Nature Communications, 2014, v. 5, n. 9, p. 4786, doi. 10.1038/ncomms5786

By:

Alvey, Heidi S.;
Gottardo, Federico L.;
Nikolova, Evgenia N.;
Al-Hashimi, Hashim M.

Publication type:

Article

Discovery of selective bioactive small molecules by targeting an RNA dynamic ensemble.

Published in:

Nature Chemical Biology, 2011, v. 7, n. 8, p. 553, doi. 10.1038/nchembio.596

By:

Stelzer, Andrew C.;
Frank, Aaron T.;
Kratz, Jeremy D.;
Swanson, Michael D.;
Gonzalez-Hernandez, Marta J.;
Janghyun Lee;
Andricioaei, Ioan;
Markovitz, David M.;
Al-Hashimi, Hashim M.

Publication type:

Article

Structural biology: Aerial view of the HIV genome.

Published in:

Nature, 2009, v. 460, n. 7256, p. 696, doi. 10.1038/460696a

By:

Al-Hashimi, Hashim M.

Publication type:

Article

Visualizing spatially correlated dynamics that directs RNA conformational transitions.

Published in:

Nature, 2007, v. 450, n. 7173, p. 1263, doi. 10.1038/nature06389

By:

Qi Zhang;
Stelzer, Andrew C.;
Fisher, Charles K.;
Al-Hashimi, Hashim M.

Publication type:

Article

An RNA tertiary switch by modifying how helices are tethered.

Published in:

Genome Biology, 2014, v. 15, n. 7, p. 425, doi. 10.1186/s13059-014-0425-z

By:

Ganser, Laura R;
Mustoe, Anthony M;
Al-Hashimi, Hashim M

Publication type:

Article

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

Published in:

PLoS ONE, 2019, v. 14, n. 12, p. 1, doi. 10.1371/journal.pone.0224850

By:

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

Publication type:

Article

Extending the Sensitivity of CEST NMR Spectroscopy to Micro‐to‐Millisecond Dynamics in Nucleic Acids Using High‐Power Radio‐Frequency Fields.

Published in:

Angewandte Chemie International Edition, 2020, v. 59, n. 28, p. 11262, doi. 10.1002/anie.202000493

By:

Rangadurai, Atul;
Shi, Honglue;
Al‐Hashimi, Hashim M.

Publication type:

Article

Infrared Spectroscopic Observation of a G–C+ Hoogsteen Base Pair in the DNA:TATA‐Box Binding Protein Complex Under Solution Conditions.

Published in:

Angewandte Chemie International Edition, 2019, v. 58, n. 35, p. 12010, doi. 10.1002/anie.201902693

By:

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

Publication type:

Article

RNA Dynamics by Design: Biasing Ensembles Towards the Ligand-Bound State.

Published in:

Angewandte Chemie, 2010, v. 122, n. 33, p. 5867, doi. 10.1002/ange.201000814

By:

Stelzer, Andrew C.;
Kratz, Jeremy D.;
Zhang, Qi;
Al-Hashimi, Hashim M.

Publication type:

Article

Titelbild: RNA Dynamics by Design: Biasing Ensembles Towards the Ligand-Bound State (Angew. Chem. 33/2010).

Published in:

Angewandte Chemie, 2010, v. 122, n. 33, p. 5715, doi. 10.1002/ange.201003852

By:

Stelzer, Andrew C.;
Kratz, Jeremy D.;
Zhang, Qi;
Al-Hashimi, Hashim M.

Publication type:

Article

Evidence that Electrostatic Interactions Dictate the Ligand-Induced Arrest of RNA Global FlexibilityWe thank Prof. H. Schwalbe, Dr. J. Wöhnert (University of Frankfurt), Dr. A. Phân (MSKCC), and Prof. O. Yaghi (University of Michigan) for stimulating discussions. H.M.A. was a visiting professor supported by SFB 579 at the University of Frankfurt in the group of H. Schwalbe during part of this work. D.J.P. acknowledges funding from the NIH (CA46778).

Published in:

Angewandte Chemie, 2005, v. 117, n. 22, p. 3478, doi. 10.1002/ange.200500075

By:

Stephen W. Pitt;
Qi Zhang;
Dinshaw J. Patel;
Hashim M. Al-Hashimi

Publication type:

Article

Visualizing transient Watson-Crick-like mispairs in DNA and RNA duplexes.

Published in:

Nature, 2015, v. 519, n. 7543, p. 315, doi. 10.1038/nature14227

By:

Kimsey, Isaac J.;
Petzold, Katja;
Sathyamoorthy, Bharathwaj;
Stein, Zachary W.;
Al-Hashimi, Hashim M.

Publication type:

Article

Visualizing transient low-populated structures of RNA.

Published in:

Nature, 2012, v. 491, n. 7426, p. 724, doi. 10.1038/nature11498

By:

Dethoff, Elizabeth A.;
Petzold, Katja;
Chugh, Jeetender;
Casiano-Negroni, Anette;
Al-Hashimi, Hashim M.

Publication type:

Article

Functional complexity and regulation through RNA dynamics.

Published in:

Nature, 2012, v. 482, n. 7385, p. 322, doi. 10.1038/nature10885

By:

Dethoff, Elizabeth A.;
Chugh, Jeetender;
Mustoe, Anthony M.;
Al-Hashimi, Hashim M.

Publication type:

Article

Transient Hoogsteen base pairs in canonical duplex DNA.

Published in:

Nature, 2011, v. 470, n. 7335, p. 498, doi. 10.1038/nature09775

By:

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

Publication type:

Article

Hydrogen bonding in duplex DNA probed by DNP enhanced solid-state NMR N-H bond length measurements.

Published in:

Frontiers in Molecular Biosciences, 2023, p. 1, doi. 10.3389/fmolb.2023.1286172

By:

Bhai, Lakshmi;
Thomas, Justin K.;
Conroy, Daniel W.;
Yu Xu;
Al-Hashimi, Hashim M.;
Jaroniec, Christopher P.

Publication type:

Article

Resolving sugar puckers in RNA excited states exposes slow modes of repuckering dynamics.

Published in:

Nucleic Acids Research, 2017, v. 45, n. 14, p. 1, doi. 10.1093/nar/gkx525

By:

Clay, Mary C.;
Ganser, Laura R.;
Merriman, Dawn K.;
Al-Hashimi, Hashim M.

Publication type:

Article

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

Published in:

Nucleic Acids Research, 2017, v. 45, n. 9, p. 5586, doi. 10.1093/nar/gkx186

By:

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

Publication type:

Article

Secondary structure encodes a cooperative tertiary folding funnel in the Azoarcus ribozyme.

Published in:

Nucleic Acids Research, 2016, v. 44, n. 1, p. 402, doi. 10.1093/nar/gkv1055

By:

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

Publication type:

Article