Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Recent developments in the PHENIX software for automated crystallographic structure determination.

Paul D Adams1, Kreshna Gopal, Ralf W Grosse-Kunstleve

  • 1Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA. PDAdams@lbl.gov

Journal of Synchrotron Radiation
|December 4, 2003
PubMed
Summary

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Report of high data rate macromolecular crystallography (HDRMX) meeting, 23 July 2025.

Structural dynamics (Melville, N.Y.)·2026
Same author

Scotty: lattice coincidences for macromolecular crystallographic phasing.

Acta crystallographica. Section D, Structural biology·2026
Same author

Scotty: lattice coincidences in the Protein Data Bank.

Acta crystallographica. Section D, Structural biology·2026
Same author

Conformational flexibility of soybean lipoxygenase is coupled to crystal solvent content in serial crystallography.

bioRxiv : the preprint server for biology·2026
Same author

In vitro cleavage requirements and specificities of mycobacterial RNase E.

Biochemical and biophysical research communications·2026
Same author

PRIME: An evaluation framework for protein representation inference and generalization in viral mutation space.

BMC genomics·2026
Same journal

Launching a new era for Short Communications in Journal of Synchrotron Radiation.

Journal of synchrotron radiation·2026
Same journal

Sagittal collimating diaboloid: a new grazing-incidence mirror surface for higher-throughput resonant inelastic X-ray scattering spectrometers.

Journal of synchrotron radiation·2026
Same journal

Synchrotron X-ray tomography and spectroscopy in numismatics: disclosing counterfeit practices in medieval silver coins.

Journal of synchrotron radiation·2026
Same journal

The Big Data Science Center at the Shanghai Synchrotron Radiation Facility: the architecture of the superfacility.

Journal of synchrotron radiation·2026
Same journal

A robotic and high-throughput X-ray micro-computed tomography workflow.

Journal of synchrotron radiation·2026
Same journal

Evolution of hierarchical phase-contrast tomography on the European Synchrotron beamlines BM05 and BM18: a whole adult human brain imaging case study.

Journal of synchrotron radiation·2026
See all related articles
This summary is machine-generated.

A new software system, PHENIX (Python-based Hierarchical ENvironment for Integrated Xtallography), automates crystallographic structure solution. It offers algorithms for refining molecular models from intensity data, aiding both new and experienced crystallographers.

Area of Science:

  • Computational crystallography
  • Structural biology software development

Background:

  • Automating crystallographic structure solution is crucial for advancing structural biology.
  • Existing software may present challenges for users of varying expertise levels.

Purpose of the Study:

  • To review the features of the PHENIX software system.
  • To describe recent advances in PHENIX infrastructure and algorithms for automated structure solution.

Main Methods:

  • Development of a Python-based Hierarchical ENvironment for Integrated Xtallography (PHENIX).
  • Integration of algorithms for processing reduced intensity data to refined molecular models.

Main Results:

  • PHENIX provides a comprehensive system for automated crystallographic structure solution.

Related Experiment Videos

  • Recent advances enhance the system's infrastructure and algorithmic capabilities.

    • Conclusions:

    • PHENIX facilitates structure solution for crystallographers, from novices to experts.
    • The system aims to streamline the process from data reduction to molecular model refinement.