Daniel Herschlag (D Herschlag)

Publication Activity (10 Years)

Years Active: 2018-2023
Publications (10 Years): 32

Top Topics

High Throughput

Convolutional Neural Network

Molecular Dynamics Simulations

African American

Top Venues

Proceedings of the National Academy of Sciences of the United States of America

Acta crystallographica. Section D, Structural biology

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Megan L Kelly, Rohit Roy, Ainan Geng, Laura R Ganser, Akanksha Manghrani, Bryan R Cullen, Ursula Schulze-Gahmen, Daniel Herschlag, Hashim M Al-Hashimi
Author Correction: RNA conformational propensities determine cellular activity. Nature (2023)
Megan L Kelly, Rohit Roy, Ainan Geng, Laura R Ganser, Akanksha Manghrani, Bryan R Cullen, Ursula Schulze-Gahmen, Daniel Herschlag, Hashim M Al-Hashimi
RNA conformational propensities determine cellular activity. Nature (2023)
John H Shin, Steve L Bonilla, Sarah K Denny, William J Greenleaf, Daniel Herschlag
Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
John H Shin, Steve L Bonilla, Sarah K Denny, William J Greenleaf, Daniel Herschlag
Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
Tzanko I Doukov, Daniel Herschlag, Filip Yabukarski
Obtaining anomalous and ensemble information from protein crystals from 220 K up to physiological temperatures. Acta crystallographica. Section D, Structural biology 79 (Pt 3) (2023)
John H Shin, Steve L Bonilla, Sarah K Denny, William J Greenleaf, Daniel Herschlag
Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
Siyuan Du, Stephanie A Wankowicz, Filip Yabukarski, Tzanko I Doukov, Daniel Herschlag, Brian K Shoichet
Refinement of Multiconformer Ensemble Models from Multi-temperature X-ray Diffraction Data. bioRxiv : the preprint server for biology (2023)
Craig J Markin, Daniel A Mokhtari, Siyuan Du, Tzanko I Doukov, Fanny Sunden, Jordan A Cook, Polly Morrell Fordyce, Daniel Herschlag
Decoupling of catalysis and transition state analog binding from mutations throughout a phosphatase revealed by high-throughput enzymology. Proceedings of the National Academy of Sciences of the United States of America 120 (29) (2023)
Tzanko I Doukov, Daniel Herschlag, Filip Yabukarski
Obtaining anomalous and ensemble information from protein crystals from 220 K up to physiological temperatures. Acta crystallographica. Section D, Structural biology 79 (Pt 3) (2023)
Siyuan Du, Stephanie A Wankowicz, Filip Yabukarski, Tzanko I Doukov, Daniel Herschlag, Brian K Shoichet
Refinement of Multiconformer Ensemble Models from Multi-temperature X-ray Diffraction Data. bioRxiv : the preprint server for biology (2023)
Siyuan Du, Stephanie A Wankowicz, Filip Yabukarski, Tzanko I Doukov, Daniel Herschlag, Brian K Shoichet
Refinement of Multiconformer Ensemble Models from Multi-temperature X-ray Diffraction Data. bioRxiv : the preprint server for biology (2023)
Tzanko I Doukov, Daniel Herschlag, Filip Yabukarski
Obtaining anomalous and ensemble information from protein crystals from 220 K up to physiological temperatures. Acta crystallographica. Section D, Structural biology 79 (Pt 3) (2023)
Filip Yabukarski, Tzanko I Doukov, Daniel A Mokhtari, Siyuan Du, Daniel Herschlag
Evaluating the impact of X-ray damage on conformational heterogeneity in room-temperature (277 K) and cryo-cooled protein crystals. Acta crystallographica. Section D, Structural biology 78 (Pt 8) (2022)
Catherine Stark, Teanna Bautista-Leung, Joanna Siegfried, Daniel Herschlag
Systematic investigation of the link between enzyme catalysis and cold adaptation. eLife 11 (2022)
Christoph Sadee, Lauren D Hagler, Winston R Becker, Inga Jarmoskaite, Pavanapuresan P Vaidyanathan, Sarah K Denny, William J Greenleaf, Daniel Herschlag
A comprehensive thermodynamic model for RNA binding by the Saccharomyces cerevisiae Pumilio protein PUF4. Nature communications 13 (1) (2022)
Filip Yabukarski, Tzanko I Doukov, Margaux M Pinney, Justin T Biel, Brian K Shoichet, Daniel Herschlag
Ensemble-function relationships to dissect mechanisms of enzyme catalysis. Science advances 8 (41) (2022)
Ian Hamilton, Magdalena Gebala, Daniel Herschlag, Rick Russell
Direct Measurement of Interhelical DNA Repulsion and Attraction by Quantitative Cross-Linking. Journal of the American Chemical Society 144 (4) (2022)
Margaux M Pinney, Daniel A Mokhtari, Eyal Akiva, Filip Yabukarski, David M Sanchez, Ruibin Liang, Tzanko I Doukov, Todd J Martinez, Patricia C Babbitt, Daniel Herschlag
Parallel molecular mechanisms for enzyme temperature adaptation. Science (New York, N.Y.) 371 (6533) (2021)
Steve L Bonilla, Sarah K Denny, John H Shin, Aurora Alvarez-Buylla, William J Greenleaf, Daniel Herschlag
High-throughput dissection of the thermodynamic and conformational properties of a ubiquitous class of RNA tertiary contact motifs. Proceedings of the National Academy of Sciences of the United States of America 118 (33) (2021)
Craig J Markin, Daniel A Mokhtari, Fanny Sunden, Mason J Appel, E Akiva, Scott A Longwell, Chiara Sabatti, Daniel Herschlag, Polly Morrell Fordyce
Revealing enzyme functional architecture via high-throughput microfluidic enzyme kinetics. Science (New York, N.Y.) 373 (6553) (2021)
Mason J Appel, Scott A Longwell, Maurizio Morri, Norma Neff, Daniel Herschlag, Polly Morrell Fordyce
uPIC-M: Efficient and Scalable Preparation of Clonal Single Mutant Libraries for High-Throughput Protein Biochemistry. ACS omega 6 (45) (2021)
Daniel Herschlag
The individual and the team in collaborative science. Proceedings of the National Academy of Sciences of the United States of America 117 (28) (2020)
Filip Yabukarski, Justin T Biel, Margaux M Pinney, Tzanko I Doukov, Alexander S Powers, Brian K Shoichet, Daniel Herschlag
Assessment of enzyme active site positioning and tests of catalytic mechanisms through X-ray-derived conformational ensembles. Proceedings of the National Academy of Sciences of the United States of America 117 (52) (2020)
Tzanko I Doukov, Daniel Herschlag, Filip Yabukarski
Instrumentation and experimental procedures for robust collection of X-ray diffraction data from protein crystals across physiological temperatures. Journal of applied crystallography 53 (Pt 6) (2020)
Inga Jarmoskaite, Ishraq AlSadhan, Pavanapuresan P Vaidyanathan, Daniel Herschlag
How to measure and evaluate binding affinities. eLife 9 (2020)
Kalli Kappel, Inga Jarmoskaite, Pavanapuresan P Vaidyanathan, William J Greenleaf, Daniel Herschlag, Rachel J Hagey
Blind tests of RNA-protein binding affinity prediction. Proceedings of the National Academy of Sciences of the United States of America 116 (17) (2019)
Raghuvir N Sengupta, Daniel Herschlag
Enhancement of RNA/Ligand Association Kinetics via an Electrostatic Anchor. Biochemistry 58 (24) (2019)
Joseph D Yesselman, Sarah K Denny, Namita Bisaria, Daniel Herschlag, William J Greenleaf, Rachel J Hagey
Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation. Proceedings of the National Academy of Sciences of the United States of America 116 (34) (2019)
Jason P Schwans, Fanny Sunden, Ana Gonzalez, Yingssu Tsai, Daniel Herschlag
Correction to Uncovering the Determinants of a Highly Perturbed Tyrosine p Ka in the Active Site of Ketosteroid Isomerase. Biochemistry 57 (14) (2018)
Dawn K Merriman, Jiayi Yuan, Honglue Shi, Ananya Majumdar, Daniel Herschlag, Hashim M Al-Hashimi
Increasing the length of poly-pyrimidine bulges broadens RNA conformational ensembles with minimal impact on stacking energetics. RNA (New York, N.Y.) 24 (10) (2018)
Margaux M Pinney, Aditya Natarajan, Filip Yabukarski, David M Sanchez, Fang Liu, Ruibin Liang, Tzanko Doukov, Jason P Schwans, Todd J Martinez, Daniel Herschlag
Structural Coupling Throughout the Active Site Hydrogen Bond Networks of Ketosteroid Isomerase and Photoactive Yellow Protein. Journal of the American Chemical Society 140 (31) (2018)
Daniel Herschlag, Margaux M Pinney
Hydrogen Bonds: Simple after All? Biochemistry 57 (24) (2018)