Kyle L. Morris
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View article: Modeling the extension behavior of aligned discontinuous fiber prepreg during thermoforming
Modeling the extension behavior of aligned discontinuous fiber prepreg during thermoforming Open
Modeling a material in its manufacturing process saves resources by optimizing the process conditions without using the material in trial-and-error tests. A finite element material model is in development to predict the deformation of high…
View article: <i>Q</i> -score as a reliability measure for protein, nucleic acid and small-molecule atomic coordinate models derived from 3DEM maps
<i>Q</i> -score as a reliability measure for protein, nucleic acid and small-molecule atomic coordinate models derived from 3DEM maps Open
Atomic coordinate models are important for the interpretation of 3D maps produced with cryoEM and cryoET (3D electron microscopy; 3DEM). In addition to visual inspection of such maps and models, quantitative metrics can inform about the re…
View article: PDB-IHM: A System for Deposition, Curation, Validation, and Dissemination of Integrative Structures
PDB-IHM: A System for Deposition, Curation, Validation, and Dissemination of Integrative Structures Open
Structures of many large biomolecular assemblies are now being determined using integrative approaches. In these approaches, information derived from multiple experimental and computational methods is combined to compute three-dimensional …
View article: EMICSS: Added-value annotations for EMDB entries
EMICSS: Added-value annotations for EMDB entries Open
Motivation: The Electron Microscopy Data Bank (EMDB) is a key repository for 3D electron microscopy (3DEM) data but lacks comprehensive annotations and connections to most of the related biological, functional, and structural data. This li…
View article: Q-score as a reliability measure for protein, nucleic acid, and small molecule atomic coordinate models derived from 3DEM density maps
Q-score as a reliability measure for protein, nucleic acid, and small molecule atomic coordinate models derived from 3DEM density maps Open
Atomic coordinate models are important in the interpretation of 3D maps produced with cryoEM and sub-tomogram averaging in cryoET, or more generically, 3D electron microscopy (3DEM). In addition to visual inspection of such maps and models…
View article: EMICSS: added-value annotations for EMDB entries
EMICSS: added-value annotations for EMDB entries Open
Motivation The electron microscopy data bank (EMDB) is a key repository for three-dimensional electron microscopy (3DEM) data but lacks comprehensive annotations and connections to many related biological, functional, and structural data r…
View article: IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods
IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods Open
IHMCIF (github.com/ihmwg/IHMCIF) is a data information framework that supports archiving and disseminating macromolecular structures determined by integrative or hybrid modeling (IHM), and making them Findable, Accessible, Interoperable, a…
View article: <i>EMinsight</i> : a tool to capture cryoEM microscope configuration and experimental outcomes for analysis and deposition
<i>EMinsight</i> : a tool to capture cryoEM microscope configuration and experimental outcomes for analysis and deposition Open
The widespread adoption of cryoEM technologies for structural biology has pushed the discipline to new frontiers. A significant worldwide effort has refined the single-particle analysis (SPA) workflow into a reasonably standardized procedu…
View article: A service-based approach to cryoEM facility processing pipelines at eBIC
A service-based approach to cryoEM facility processing pipelines at eBIC Open
Electron cryo-microscopy image-processing workflows are typically composed of elements that may, broadly speaking, be categorized as high-throughput workloads which transition to high-performance workloads as preprocessed data are aggregat…
View article: Community recommendations on cryoEM data archiving and validation
Community recommendations on cryoEM data archiving and validation Open
In January 2020, a workshop was held at EMBL-EBI (Hinxton, UK) to discuss data requirements for the deposition and validation of cryoEM structures, with a focus on single-particle analysis. The meeting was attended by 47 experts in data pr…
View article: EMinsight: a tool to capture cryoEM microscope configuration and experimental outcomes for analysis and deposition
EMinsight: a tool to capture cryoEM microscope configuration and experimental outcomes for analysis and deposition Open
The widespread adoption of cryoEM technologies for structural biology has pushed the discipline to new frontiers. A significant worldwide effort has refined the Single Particle Analysis (SPA) workflow into a reasonably standardised procedu…
View article: PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank
PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank Open
The Protein Data Bank (PDB) is the global repository for public-domain experimentally determined 3D biomolecular structural information. The archival nature of the PDB presents certain challenges pertaining to updating or adding associated…
View article: EMDB—the Electron Microscopy Data Bank
EMDB—the Electron Microscopy Data Bank Open
The Electron Microscopy Data Bank (EMDB) is the global public archive of three-dimensional electron microscopy (3DEM) maps of biological specimens derived from transmission electron microscopy experiments. As of 2021, EMDB is managed by th…
View article: PDB NextGen Archive: Centralising Access to Integrated Annotations and Enriched Structural Information by the Worldwide Protein Data Bank
PDB NextGen Archive: Centralising Access to Integrated Annotations and Enriched Structural Information by the Worldwide Protein Data Bank Open
The Protein Data Bank (PDB) archive is the global repository for public-domain 3D biomolecular structural information. The archival nature of the PDB presents certain challenges pertaining to updating or adding associated annotations from …
View article: Cryo-Electron Tomography Remote Data Collection and Subtomogram Averaging
Cryo-Electron Tomography Remote Data Collection and Subtomogram Averaging Open
Cryo-electron tomography (cryo-ET) has been gaining momentum in recent years, especially since the introduction of direct electron detectors, improved automated acquisition strategies, preparative techniques that expand the possibilities o…
View article: Cryo-Electron Tomography Remote Data Collection and Subtomogram Averaging
Cryo-Electron Tomography Remote Data Collection and Subtomogram Averaging Open
Cryo-electron tomography (cryo-ET) has been gaining momentum in recent years, especially since the introduction of direct electron detectors, improved automated acquisition strategies, preparative techniques that expand the possibilities o…
View article: Multi-modal adaptor-clathrin contacts drive coated vesicle assembly
Multi-modal adaptor-clathrin contacts drive coated vesicle assembly Open
Clathrin-coated pits are formed by the recognition of membrane and cargo by the heterotetrameric AP2 complex and the subsequent recruitment of clathrin triskelia. A potential role for AP2 in coated-pit assembly beyond initial clathrin recr…
View article: Conserved Cdk inhibitors show unique structural responses to tyrosine phosphorylation
Conserved Cdk inhibitors show unique structural responses to tyrosine phosphorylation Open
Balanced proliferation-quiescence decisions are vital during normal development and in tissue homeostasis and their dysregulation underlies tumorigenesis. Entry into proliferative cycles is driven by Cyclin/Cyclin-dependent kinases (Cdks).…
View article: Allosteric activation of the nitric oxide receptor soluble guanylate cyclase mapped by cryo-electron microscopy
Allosteric activation of the nitric oxide receptor soluble guanylate cyclase mapped by cryo-electron microscopy Open
Soluble guanylate cyclase (sGC) is the primary receptor for nitric oxide (NO) in mammalian nitric oxide signaling. We determined structures of full-length Manduca sexta sGC in both inactive and active states using cryo-electron microscopy.…
View article: Author response: Allosteric activation of the nitric oxide receptor soluble guanylate cyclase mapped by cryo-electron microscopy
Author response: Allosteric activation of the nitric oxide receptor soluble guanylate cyclase mapped by cryo-electron microscopy Open
Article Figures and data Abstract eLife digest Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract Soluble guanylate cyclase (sG…