9YCF
RSV-F SC-DM bound to a designed protein minibinder, cb13
This is a non-PDB format compatible entry.
Summary for 9YCF
| Entry DOI | 10.2210/pdb9ycf/pdb |
| EMDB information | 72769 |
| Descriptor | cb13, Fusion glycoprotein F0 (2 entities in total) |
| Functional Keywords | rsv, sc-dm, rsv-f, de novo protein, minibinder, glycoprotein, respiratory syncytial virus, cryoem, cryo-em, protein binding |
| Biological source | synthetic construct More |
| Total number of polymer chains | 4 |
| Total formula weight | 177404.20 |
| Authors | Borst, A.J.,Skotheim, R. (deposition date: 2025-09-18, release date: 2026-07-15, Last modification date: 2026-09-30) |
| Primary citation | Qian, J.,Milles, L.F.,Wicky, B.I.M.,Ragotte, R.J.,Motmaen, A.,Borst, A.J.,Skotheim, R.,Ols, S.,Coventry, B.,Li, X.,Kibler, R.D.,Goreshnik, I.,Exposit, M.,Lore, K.,Stewart, L.,Baker, D. Accelerating protein design by scaling experimental characterization. Nat Commun, 17:-, 2026 Cited by PubMed Abstract: Recent advances in de novo protein design have greatly outpaced standard protein biochemistry workflows, making experimental validation a bottleneck. Here, we describe workflows to address the scale, speed and reproducibility of common in vitro protein testing methods, enabling at least an order of magnitude increase in throughput while reducing wetlab time. Semi-Automated Protein Production (SAPP) is a rapid, modular, scalable and cost-effective protocol, enabling up to milligram-scale protein production and standardized characterization - including yield, dispersity, and oligomeric state - of hundreds of designs per day, at the cost-equivalent of a few DNA oligos per construct. End-to-end protocol execution takes 48 hours, with ~6 hours spent benchside using standard laboratory equipment. We showcase the platform by rapidly screening redesigned fluorescent proteins, as well as identifying de novo binders that potently neutralize respiratory syncytial virus. We also developed a barcoding and demultiplexing protocol (DMX) to further reduce gene synthesis cost 5-fold by leveraging oligo pools as input DNA for the generation of thousands of sequence-verified arrayed clones. These protocols which combine optimized molecular biology, automated analysis, and optional open-source robotics should be widely adoptable, accelerating protein design. PubMed: 42754580DOI: 10.1038/s41467-026-76740-9 PDB entries with the same primary citation |
| Experimental method | ELECTRON MICROSCOPY (4.63 Å) |
Structure validation
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