Author

Nathaniel Echols

University of California, San Francisco

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 3

Signature Assays, Organisms & Methods

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Approach:deep learning· 3 Research Focus:benchmarking· 2 Approach:statistical model· 2 Assay:cryo-EM· 1 Assay:electronic health records· 1 Research Focus:protein structure prediction· 1 Research Focus:software / tool· 1 Assay:structural biology· 1

Frequent Co-Authors

Adam R. RensloiD· 1 shared Benjamin A Barad· 1 shared Fang-Chieh Chou· 1 shared Frank DiMaio· 1 shared G.J. CorreyiD· 1 shared Henry van den BedemiD· 1 shared James S Fraser· 1 shared James S. FraseriD· 1 shared

Activity by Year

2015-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 16 mutual co-author links

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1 shared paperBiophysics

Adam R. RensloORCID

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3 papers

Recent·Most cited

Expanding Automated Multiconformer Ligand Modeling to Macrocycles and Fragments

Jessica Flowers, Nathaniel Echols, G.J. Correy, Priyadarshini Jaishankar, Takaya Togo, Adam R. Renslo, Henry van den Bedem, James S. Fraser, Stephanie A. M. Wankowicz

The paper improves qFit-ligand to better model ligand conformations in structural data, enhancing analysis of conformational heterogeneity in ligand-bound structures.

eLife · Jun 30, 2025Peer-reviewedBiophysics

RNA Structure Refinement using the ERRASER-Phenix pipeline

Fang-Chieh Chou, Nathaniel Echols, Thomas C. Terwilliger, Rhiju Das

The paper introduces ERRASER-Phenix, a pipeline that improves RNA crystallographic models by combining diffraction-based refinement with real-space refinement, enhancing geometrical quality and fit to diffraction data.

Methods in Molecular Biology · Jan 1, 2016Peer-reviewedBiophysics

Side-chain-directed model and map validation for 3D Electron Cryomicroscopy

Benjamin A Barad, Nathaniel Echols, Ray Yu-Ruei Wang, Yifan Cheng, Frank DiMaio, Paul D Adams, James S Fraser

This paper introduces EMRinger, a method to validate atomic models against cryo-EM maps by analyzing side-chain dihedral angles, showing its utility in model refinement and radiation damage assessment.

bioRxiv · Feb 3, 2015Biophysics