Journal: Nat Commun / Year: 2021 Title: Design of multi-scale protein complexes by hierarchical building block fusion. Authors: Yang Hsia / Rubul Mout / William Sheffler / Natasha I Edman / Ivan Vulovic / Young-Jun Park / Rachel L Redler / Matthew J Bick / Asim K Bera / Alexis Courbet / Alex Kang / T J Brunette / Una ...Authors: Yang Hsia / Rubul Mout / William Sheffler / Natasha I Edman / Ivan Vulovic / Young-Jun Park / Rachel L Redler / Matthew J Bick / Asim K Bera / Alexis Courbet / Alex Kang / T J Brunette / Una Nattermann / Evelyn Tsai / Ayesha Saleem / Cameron M Chow / Damian Ekiert / Gira Bhabha / David Veesler / David Baker / Abstract: A systematic and robust approach to generating complex protein nanomaterials would have broad utility. We develop a hierarchical approach to designing multi-component protein assemblies from two ...A systematic and robust approach to generating complex protein nanomaterials would have broad utility. We develop a hierarchical approach to designing multi-component protein assemblies from two classes of modular building blocks: designed helical repeat proteins (DHRs) and helical bundle oligomers (HBs). We first rigidly fuse DHRs to HBs to generate a large library of oligomeric building blocks. We then generate assemblies with cyclic, dihedral, and point group symmetries from these building blocks using architecture guided rigid helical fusion with new software named WORMS. X-ray crystallography and cryo-electron microscopy characterization show that the hierarchical design approach can accurately generate a wide range of assemblies, including a 43 nm diameter icosahedral nanocage. The computational methods and building block sets described here provide a very general route to de novo designed protein nanomaterials.
Evidence: gel filtration, Assembly elutes at the expected volume under Superdex 200 Increase 10/300 GL (Cytiva)., mass spectrometry, Native mass spectrometry suggests trimeric formation in solution., ...Evidence: gel filtration, Assembly elutes at the expected volume under Superdex 200 Increase 10/300 GL (Cytiva)., mass spectrometry, Native mass spectrometry suggests trimeric formation in solution., light scattering, Dynamic light scattering (Wyatt) shows a monodisperse RH reflective of the design.
Mass: 38155.633 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: Escherichia coli (E. coli)
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Experimental details
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Experiment
Experiment
Method: X-RAY DIFFRACTION / Number of used crystals: 1
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Sample preparation
Crystal
Density Matthews: 2.88 Å3/Da / Density % sol: 57.28 %
Crystal grow
Temperature: 293.15 K / Method: vapor diffusion, sitting drop / pH: 6 Details: JCSG core I condition E11 (0.1M MES pH 5.0, 20% MPD) plus an additional 20% MPD as a cryoprotectant.
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Data collection
Diffraction
Mean temperature: 100 K / Ambient temp details: liquid nitrogen vapor stream / Serial crystal experiment: N
Diffraction source
Source: SYNCHROTRON / Site: ALS / Beamline: 8.2.1 / Wavelength: 0.9999 Å
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