ArticleBiophysical journal1998
Low-resolution structures of proteins in solution retrieved from X-ray scattering with a genetic algorithm.
Article in Biophysical journal, 1998. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 73 papers.
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Who cites it
73 citing papers in PubMed, 286 citations in OpenAlex.
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- Exploring Nigella Sativa's medicinal capacity against skin cancer pathways using network pharmacology and molecular docking.Scientific reports · 2025Article
- Fitting high-resolution electron density maps from atomic models to solution scattering data.Biophysical journal · 2023Article
- Reconstruction of 3D density from solution scattering.Methods in enzymology · 2023Article
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- The 3D structure of fibrous material is fully restorable from its X-ray diffraction pattern.IUCrJ · 2021Article
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- Restoring structural parameters of lipid mixtures from small-angle X-ray scattering data.Journal of applied crystallography · 2021Article
- Domain Organization in Plant Blue-Light Receptor Phototropin2 ofInternational journal of molecular sciences · 2020Review
- Evaluating Anti-CD32b F(ab) Conformation Using Molecular Dynamics and Small-Angle X-Ray Scattering.Biophysical journal · 2018Article
- Dummy-atom modelling of stacked and helical nanostructures from solution scattering data.IUCrJ · 2018Article
- Gold nanocrystal labels provide a sequence-to-3D structure map in SAXS reconstructions.Science advances · 2018Article
- Ab initio electron density determination directly from solution scattering data.Nature methods · 2018Article
- Modeling Structure and Dynamics of Protein Complexes with SAXS Profiles.Methods in molecular biology (Clifton, N.J.) · 2018Article
- Low-Resolution Structure of Detergent-Solubilized Membrane Proteins from Small-Angle Scattering Data.Biophysical journal · 2017Article
- Topological Structure Determination of RNA Using Small-Angle X-Ray Scattering.Journal of molecular biology · 2017Article
- Progress in small-angle scattering from biological solutions at high-brilliance synchrotrons.IUCrJ · 2017Review
- Combining NMR and small angle X-ray scattering for the study of biomolecular structure and dynamics.Archives of biochemistry and biophysics · 2017Review
13 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Small-angle x-ray solution scattering (SAXS) is analyzed with a new method to retrieve convergent model structures that fit the scattering profiles. An arbitrary hexagonal packing of several hundred beads containing the problem object is defined. Instead of attempting to compute the Debye formula for all of the possible mass distributions, a genetic algorithm is employed that efficiently searches the configurational space and evolves best-fit bead models. Models from different runs of the algorithm have similar or identical structures. The modeling resolution is increased by reducing the bead radius together with the search space in successive cycles of refinement. The method has been tested with protein SAXS (0.001 < S < 0.06 A(-1)) calculated from x-ray crystal structures, adding noise to the profiles. The models obtained closely approach the volumes and radii of gyration of the known structures, and faithfully reproduce the dimensions and shape of each of them. This includes finding the active site cavity of lysozyme, the bilobed structure of gamma-crystallin, two domains connected by a stalk in betab2-crystallin, and the horseshoe shape of pancreatic ribonuclease inhibitor. The low-resolution solution structure of lysozyme has been directly modeled from its experimental SAXS profile (0.003 < S < 0.03 A(-1)). The model describes lysozyme size and shape to the resolution of the measurement. The method may be applied to other proteins, to the analysis of domain movements, to the comparison of solution and crystal structures, as well as to large macromolecular assemblies.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.