Likelihood-based interactive local docking into cryo-EM maps in ChimeraX

References

First citationBaek, M., DiMaio, F., Anishchenko, I., Dauparas, J., Ovchinnikov, S., Lee, G. R., Wang, J., Cong, Q., Kinch, L. N., Schaeffer, R. D., Millán, C., Park, H., Adams, C., Glassman, C. R., DeGiovanni, A., Pereira, J. H., Rodrigues, A. V., van Dijk, A. A., Ebrecht, A. C., Opperman, D. J., Sagmeister, T., Buhlheller, C., Pavkov-Keller, T., Rathina­swamy, M. K., Dalwadi, U., Yip, C. K., Burke, J. E., Garcia, K. C., Grishin, N. V., Adams, P. D., Read, R. J. & Baker, D. (2021). Science, 373, 871–876.  Web of Science CrossRef CAS PubMed Google Scholar
First citationBaradaran, R., Berrisford, J. M., Minhas, G. S. & Sazanov, L. A. (2013). Nature, 494, 443–448.  Web of Science CrossRef CAS PubMed Google Scholar
First citationBerman, H., Henrick, K., Nakamura, H. & Markley, J. L. (2007). Nucleic Acids Res. 35, D301–D303.  Web of Science CrossRef PubMed CAS Google Scholar
First citationBrohawn, S. G., Campbell, E. B. & MacKinnon, R. (2014). Nature, 516, 126–130.  CrossRef CAS PubMed Google Scholar
First citationBurnley, T., Palmer, C. M. & Winn, M. (2017). Acta Cryst. D73, 469–477.  Web of Science CrossRef IUCr Journals Google Scholar
First citationCroll, T. I. (2018). Acta Cryst. D74, 519–530.  Web of Science CrossRef IUCr Journals Google Scholar
First citationEfremov, R. G. & Sazanov, L. A. (2011). Nature, 476, 414–420.  Web of Science CrossRef CAS PubMed Google Scholar
First citationGharpure, A., Teng, J., Zhuang, Y., Noviello, C. M., Walsh, R. M., Cabuco, R., Howard, R. J., Zaveri, N. T., Lindahl, E. & Hibbs, R. E. (2019). Neuron, 104, 501–511.  CrossRef CAS PubMed Google Scholar
First citationGoddard, T. D., Huang, C. C., Meng, E. C., Pettersen, E. F., Couch, G. S., Morris, J. H. & Ferrin, T. E. (2018). Protein Sci. 27, 14–25.  Web of Science CrossRef CAS PubMed Google Scholar
First citationJumper, J., Evans, R., Pritzel, A., Green, T., Figurnov, M., Ronneberger, O., Tunyasuvunakool, K., Bates, R., Žídek, A., Potapenko, A., Bridgland, A., Meyer, C., Kohl, S. A. A., Ballard, A. J., Cowie, A., Romera-Paredes, B., Nikolov, S., Jain, R., Adler, J., Back, T., Petersen, S., Reiman, D., Clancy, E., Zielinski, M., Steinegger, M., Pacholska, M., Berghammer, T., Bodenstein, S., Silver, D., Vinyals, O., Senior, A. W., Kavukcuoglu, K., Kohli, P. & Hassabis, D. (2021). Nature, 596, 583–589.  Web of Science CrossRef CAS PubMed Google Scholar
First citationKimanius, D., Dong, L., Sharov, G., Nakane, T. & Scheres, S. H. W. (2021). Biochem. J. 478, 4169–4185.  Web of Science CrossRef CAS PubMed Google Scholar
First citationKolata, P. & Efremov, R. G. (2021). eLife, 10, e68710.  Web of Science CrossRef PubMed Google Scholar
First citationKucukelbir, A., Sigworth, F. J. & Tagare, H. D. (2014). Nat. Methods, 11, 63–65.  Web of Science CrossRef CAS PubMed Google Scholar
First citationLawson, C. L., Patwardhan, A., Baker, M. L., Hryc, C., Garcia, E. S., Hudson, B. P., Lagerstedt, I., Ludtke, S. J., Pintilie, G., Sala, R., Westbrook, J. D., Berman, H. M., Kleywegt, G. J. & Chiu, W. (2016). Nucleic Acids Res. 44, D396–D403.  Web of Science CrossRef CAS PubMed Google Scholar
First citationLiebschner, D., Afonine, P. V., Baker, M. L., Bunkóczi, G., Chen, V. B., Croll, T. I., Hintze, B., Hung, L.-W., Jain, S., McCoy, A. J., Moriarty, N. W., Oeffner, R. D., Poon, B. K., Prisant, M. G., Read, R. J., Richardson, J. S., Richardson, D. C., Sammito, M. D., Sobolev, O. V., Stockwell, D. H., Terwilliger, T. C., Urzhumtsev, A. G., Videau, L. L., Williams, C. J. & Adams, P. D. (2019). Acta Cryst. D75, 861–877.  Web of Science CrossRef IUCr Journals Google Scholar
First citationMaun, H. R., Wen, X., Lingel, A., de Sauvage, F. J., Lazarus, R. A., Scales, S. J. & Hymowitz, S. G. (2010). J. Biol. Chem. 285, 26570–26580.  Web of Science CrossRef CAS PubMed Google Scholar
First citationMcCoy, A. J., Oeffner, R. D., Wrobel, A. G., Ojala, J. R. M., Tryggvason, K., Lohkamp, B. & Read, R. J. (2017). Proc. Natl Acad. Sci. USA, 114, 3637–3641.  Web of Science CrossRef CAS PubMed Google Scholar
First citationMeng, E. C., Goddard, T. D., Pettersen, E. F., Couch, G. S., Pearson, Z. J., Morris, J. H. & Ferrin, T. E. (2023). Protein Sci. 32, e4792.  CrossRef PubMed Google Scholar
First citationMillán, C., McCoy, A. J., Terwilliger, T. C. & Read, R. J. (2023). Acta Cryst. D79, 281–289.  Web of Science CrossRef IUCr Journals Google Scholar
First citationMirdita, M., Schütze, K., Moriwaki, Y., Heo, L., Ovchinnikov, S. & Steinegger, M. (2022). Nat. Methods, 19, 679–682.  Web of Science CrossRef CAS PubMed Google Scholar
First citationNakane, T., Kotecha, A., Sente, A., McMullan, G., Masiulis, S., Brown, P. M. G. E., Grigoras, I. T., Malinauskaite, L., Malinauskas, T., Miehling, J., Uchański, T., Yu, L., Karia, D., Pechnikova, E. V., de Jong, E., Keizer, J., Bischoff, M., McCormack, J., Tiemeijer, P., Hardwick, S. W., Chirgadze, D. Y., Murshudov, G., Aricescu, A. R. & Scheres, S. H. W. (2020). Nature, 587, 152–156.  Web of Science CrossRef CAS PubMed Google Scholar
First citationOeffner, R. D., Croll, T. I., Millán, C., Poon, B. K., Schlicksup, C. J., Read, R. J. & Terwilliger, T. C. (2022). Acta Cryst. D78, 1303–1314.  Web of Science CrossRef IUCr Journals Google Scholar
First citationPettersen, E. F., Goddard, T. D., Huang, C. C., Meng, E. C., Couch, G. S., Croll, T. I., Morris, J. H. & Ferrin, T. E. (2021). Protein Sci. 30, 70–82.  Web of Science CrossRef CAS PubMed Google Scholar
First citationRead, R. J., Millán, C., McCoy, A. J. & Terwilliger, T. C. (2023). Acta Cryst. D79, 271–280.  Web of Science CrossRef IUCr Journals Google Scholar

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