2019 Publications

Publications Supported by the Resource in 2019

  1. Brosey CA, Tainer JA. Evolving SAXS versatility: solution X-ray scattering for macromolecular architecture, functional landscapes, and integrative structural biology. Curr Opin Struct Biol. 2019 58:197–213. PMCID: PMC6778498
  2. Bruning JM, Wang Y, Oltrabella F, Tian B, Kholodar SA, Liu H, Bhattacharya P, Guo S, Holton JM, Fletterick RJ, Jacobson MP, England PM. Covalent Modification and Regulation of the Nuclear Receptor Nurr1 by a Dopamine Metabolite. Cell Chem Biol. 2019 26:674-685.e6. PMCID: PMC7185887.
  3. Bryant JM, Blind RD. Signaling through non-membrane nuclear phosphoinositide binding proteins in human health and disease. J Lipid Res. 2019 60:299-311. PMCID: PMC6358298.
  4. Canon J, Rex K, Saiki AY, Mohr C, Cooke K, Bagal D, Gaida K, Holt T, Knutson CG, Koppada N, Lanman BA, Werner J, Rapaport AS, San Miguel T, Ortiz R, Osgood T, Sun J-R, Zhu X, McCarter JD, Volak LP, Houk BE, Fakih MG, O’Neil BH, Price TJ, Falchook GS, Desai J, Kuo J, Govindan R, Hong DS, Ouyang W, Henary H, Arvedson T, Cee VJ, Lipford JR. The clinical KRAS(G12C) inhibitor AMG 510 drives anti-tumour immunity. Nature. England; 2019 575:217–223. PMID: 31666701
  5. Caveney NA, Caballero G, Voedts H, Niciforovic A, Worrall LJ, Vuckovic M, Fonvielle M, Hugonnet JE, Arthur M, Strynadka NCJ. Structural insight into YcbB-mediated beta-lactam resistance in Escherichia coli. Nat Commun. 2019 10:1849. PMCID: PMC6478713.
  6. Cruite JT, Kovacikova G, Clark KA, Woodbrey AK, Skorupski K, Kull FJ. Structural basis for virulence regulation in Vibrio cholerae by unsaturated fatty acid components of bile. Commun Biol. 2019 2:440. PMCID: PMC6882843
  7. Dang HV, Chan Y-P, Park Y-J, Snijder J, Da Silva SC, Vu B, Yan L, Feng Y-R, Rockx B, Geisbert TW, Mire CE, Broder CC, Veesler D. An antibody against the F glycoprotein inhibits Nipah and Hendra virus infections. Nat Struct Mol Biol. 2019 26:980–987. PMCID: PMC6858553
  8. Dosenovic P, Pettersson A-K, Wall A, Thientosapol ES, Feng J, Weidle C, Bhullar K, Kara EE, Hartweger H, Pai JA, Gray MD, Parks KR, Taylor JJ, Pancera M, Stamatatos L, Nussenzweig MC, McGuire AT. Anti-idiotypic antibodies elicit anti-HIV-1-specific B cell responses. J Exp Med. 2019 216:2316–2330. PMCID: PMC6780999
  9. D’Arcy BM, Blount J, Prakash A. Biochemical and structural characterization of two variants of uncertain significance in the PMS2 gene. Hum Mutat. 2019 40:458-471. PMCID: PMC6450075.
  10. Feng N, Hu L, Ding S, Sanyal M, Zhao B, Sankaran B, Ramani S, McNeal M, Yasukawa LL, Song Y, Prasad BVV, Greenberg HB. Human VP8* mAbs neutralize rotavirus selectively in human intestinal epithelial cells. J Clin Invest. 2019 130:3839–3851. PMCID: PMC6715378
  11. Ge J, Remesh SG, Hammel M, Pan S, Mahan AD, Wang S, Wang X. Functional Relevance of Interleukin-1 Receptor Inter-domain Flexibility for Cytokine Binding and Signaling. Structure. 2019 27:1296-1307.e5. PMCID: PMC6687543
  12. Halabelian L, Ravichandran M, Li Y, Zeng H, Rao A, Aravind L, Arrowsmith CH. Structural basis of HMCES interactions with abasic DNA and multivalent substrate recognition. Nat Struct Mol Biol. 2019 26:607–612. PMCID: PMC6609482
  13. Horst BG, Yokom AL, Rosenberg DJ, Morris KL, Hammel M, Hurley JH, Marletta MA. Allosteric activation of the nitric oxide receptor soluble guanylate cyclase mapped by cryo-electron microscopy. Elife. 2019 8. PMCID: PMC6839917
  14. Hung M, Tokarsky EJ, Lagpacan L, Zhang L, Suo Z, Lansdon EB. Elucidating molecular interactions of L-nucleotides with HIV-1 reverse transcriptase and mechanism of M184V-caused drug resistance. Commun Biol. 2019 2:469. PMCID: PMC6910994
  15. Hura GL, Hodge CD, Rosenberg D, Guzenko D, Duarte JM, Monastyrskyy B, Grudinin S, Kryshtafovych A, Tainer JA, Fidelis K, Tsutakawa SE. Small angle X-ray scattering-assisted protein structure prediction in CASP13 and emergence of solution structure differences. Proteins. 2019 87:1298–1314. PMCID: PMC6851496
  16. Koepnick B, Flatten J, Husain T, Ford A, Silva D-A, Bick MJ, Bauer A, Liu G, Ishida Y, Boykov A, Estep RD, Kleinfelter S, Nørgård-Solano T, Wei L, Players F, Montelione GT, DiMaio F, Popović Z, Khatib F, Cooper S, Baker D. De novo protein design by citizen scientists. Nature. 2019 570:390–394. PMCID: PMC6701466
  17. Kang C, Jun S-Y, Bravo AG, Vargas EM, Liu H, Lewis KM, Xun L. Structural and biochemical characterization of iminodiacetate oxidase from Chelativorans sp. BNC1. Mol Microbiol. England; 2019 112:1863–1874. PMID: 31580513
  18. Langan RA, Boyken SE, Ng AH, Samson JA, Dods G, Westbrook AM, Nguyen TH, Lajoie MJ, Chen Z, Berger S, Mulligan VK, Dueber JE, Novak WRP, El-Samad H, Baker D. De novo design of bioactive protein switches. Nature. 2019 572:205–210. PMCID: PMC6733528
  19. Lei M, Tempel W, Chen S, Liu K, Min J. Plasticity at the DNA recognition site of the MeCP2 mCG-binding domain. Biochim Biophys Acta Gene Regul Mech. Netherlands; 2019 1862:194409. PMID: 31356990
  20. Lu T-W, Wu J, Aoto PC, Weng J-H, Ahuja LG, Sun N, Cheng CY, Zhang P, Taylor SS. Two PKA RIα holoenzyme states define ATP as an isoform-specific orthosteric inhibitor that competes with the allosteric activator, cAMP. Proc Natl Acad Sci U S A. 2019 116:16347–16356. PMCID: PMC6697891
  21. Ma X, Prathapam R, Wartchow C, Chie-Leon B, Ho C-M, De Vicente J, Han W, Li M, Lu Y, Ramurthy S, Shia S, Steffek M, Uehara T. Structural and Biological Basis of Small Molecule Inhibition of Escherichia coli LpxD Acyltransferase Essential for Lipopolysaccharide Biosynthesis. ACS Infect Dis. United States; 2019 PMID: 31402665
  22. Maniaci B, Lipper CH, Anipindi DL, Erlandsen H, Cole JL, Stec B, Huxford T, Love JJ. Design of High-Affinity Metal-Controlled Protein Dimers. Biochemistry. 2019 58:2199-2207. PMID: 30938154.
  23. Mitra S, Kumar D, Hu L, Sankaran B, Moosa MM, Rice AP, Ferreon JC, Ferreon ACM, Prasad BVV. Influenza A Virus Protein NS1 Exhibits Strain-Independent Conformational Plasticity. J Virol. 2019 93:e00917-19. PMCID: PMC6803261.
  24. Neugebauer ME, Sumida KH, Pelton JG, McMurry JL, Marchand JA, Chang MCY. A family of radical halogenases for the engineering of amino-acid-based products. Nat Chem Biol. 2019 15:1009-1016. PMID: 31548692.
  25. Pyles H, Zhang S, De Yoreo JJ, Baker D. Controlling protein assembly on inorganic crystals through designed protein interfaces. Nature. 2019 571:251–256. PMCID: PMC6948101
  26. Raeeszadeh-Sarmazdeh M, Greene KA, Sankaran B, Downey GP, Radisky DC, Radisky ES. Directed evolution of the metalloproteinase inhibitor TIMP-1 reveals that its N- and. J Biol Chem. 2019 294:9476–9488. PMCID: PMC6579469
  27. Rescourio G, Gonzalez AZ, Jabri S, Belmontes B, Moody G, Whittington D, Huang X, Caenepeel S, Cardozo M, Cheng AC, Chow D, Dou H, Jones A, Kelly RC, Li Y, Lizarzaburu M, Lo M-C, Mallari R, Meleza C, Rew Y, Simonovich S, Sun D, Turcotte S, Yan X, Wong SG, Yanez E, Zancanella M, Houze J, Medina JC, Hughes PE, Brown SP. Discovery and in Vivo Evaluation of Macrocyclic Mcl-1 Inhibitors Featuring an  α-Hydroxy Phenylacetic Acid Pharmacophore or Bioisostere. J Med Chem. United States; 2019 62:10258–10271. PMID: 31736296
  28. Seeherman HJ, Berasi SP, Brown CT, Martinez RX, Juo ZS, Jelinsky S, Cain MJ, Grode J, Tumelty KE, Bohner M, Grinberg O, Orr N, Shoseyov O, Eyckmans J, Chen C, Morales PR, Wilson CG, Vanderploeg EJ, Wozney JM. A BMP/activin A chimera is superior to native BMPs and induces bone repair in nonhuman primates when delivered in a composite matrix. Sci Transl Med. 2019 11:eaar4953. PMID: 31019025.
  29. Shin Y, Jeong JW, Wurz RP, Achanta P, Arvedson T, Bartberger MD, Campuzano IDG, Fucini R, Hansen SK, Ingersoll J, Iwig JS, Lipford JR, Ma V, Kopecky DJ, McCarter J, San Miguel T, Mohr C, Sabet S, Saiki AY, Sawayama A, Sethofer S, Tegley CM, Volak LP, Yang K, Lanman BA, Erlanson DA, Cee VJ. Discovery of N-(1-Acryloylazetidin-3-yl)-2-(1H-indol-1-yl)acetamides as Covalent  Inhibitors of KRAS(G12C). ACS Med Chem Lett. 2019 10:1302–1308. PMCID: PMC6746093
  30. Stachowski T, Grant TD, Snell EH. Structural consequences of transforming growth factor beta-1 activation from near-therapeutic X-ray doses. J Synchrotron Radiat. 2019 26:967–979. PMCID: PMC6613122
  31. Taylor JG, Zipfel S, Ramey K, Vivian R, Schrier A, Karki KK, Katana A, Kato D, Kobayashi T, Martinez R, Sangi M, Siegel D, Tran CV, Yang Z-Y, Zablocki J, Yang CY, Wang Y, Wang K, Chan K, Barauskas O, Cheng G, Jin D, Schultz BE, Appleby T, Villaseñor AG, Link JO. Discovery of the pan-genotypic hepatitis C virus NS3/4A protease inhibitor voxilaprevir (GS-9857): A component of Vosevi(®). Bioorg Med Chem Lett. England; 2019 29:2428–2436. PMID: 31133531
  32. Turco E, Witt M, Abert C, Bock-Bierbaum T, Su MY, Trapannone R, Sztacho M, Danieli A, Shi X, Zaffagnini G, Gamper A, Schuschnig M, Fracchiolla D, Bernklau D, Romanov J, Hartl M, Hurley JH, Daumke O, Martens S. FIP200 Claw Domain Binding to p62 Promotes Autophagosome Formation at Ubiquitin Condensates. Mol Cell. 2019 74:330-346.e11. PMCID: PMC6477179.
  33. Wang B, Song J. Structural basis for the ORC1-Cyclin A association. Protein Sci. 2019 28:1727–1733. PMCID: PMC6699096
  34. West AM, Rosenberg SC, Ur SN, Lehmer MK, Ye Q, Hagemann G, Caballero I, Usón I, MacQueen AJ, Herzog F, Corbett KD. A conserved filamentous assembly underlies the structure of the meiotic chromosome axis. Elife. 2019 8:e40372. PMCID: PMC6349405.
  35. Zhu J, Muia J, Gupta G, Westfield LA, Vanhoorelbeke K, Tolia NH, Sadler JE. Exploring the “minimal” structure of a functional ADAMTS13 by mutagenesis and small-angle X-ray scattering. Blood. 2019 133:1909-1918. PMCID: PMC6484386.