X-ray Facility Publications

This only reflects publications after the formation of this website (2005), not papers published previously, and only ones that utilized the facility itself. Reviews and news & views articles aren't included here.

2024

V. Chioti, K.L. McWhorter, T.C. Blue, Y. Li, F. Xu, P.D. Jeffrey, K.M. Davis, M.R. Seyedsayamdost (2024) Nat Chem Biol 20, 924-933. "Potent and specific antibiotic combination therapy against Clostridioides difficile" Pubmed

C.T. McManus, S.M. Travis, P.D. Jeffrey, R. Zhang, S. Petry (2024) bioRxiv:2024.06.03.597159. doi: 10.1101/2024.06.03.597159. "Mechanism of how the universal module XMAP215 γ-TuRC nucleates microtubules"

Y. Liu, S.G. Bender, D. Sorigue, D.J. Diaz, A.D. Ellington, G. Mann, S. Allmendinger, T.K. Hyster (2024) J. Am. Chem. Soc., 146, 7191–7197. "Asymmetric Synthesis of α-Chloroamides via Photoenzymatic Hydroalkylation of Olefins" JACS

K.A. DAmico, A.E. Stanton, J.D. Shirkey, S.M. Travis, P.D.Jeffrey, F.M. Hughson (2024) Nat Struct Mol Biol. 31, 246-254. "Structure of a Membrane Tethering Complex Incorporating Multiple SNAREs" PubMed

2023

B. Romer, S.M. Travis, B.P. Mahon, C.T. McManus, P.D. Jeffrey, N. Coudray, R. Raghu, M.J. Rale, E.D. Zhong, G. Bhabha, S. Petry (2023) bioRxiv:2023.12.19.572162. "Conformational states of the microtubule nucleator, the γ-tubulin ring complex"

2022

H. Fu, J. Cao, T. Qiao, Y. Qi, S.J. Charnock, S. Garfinkle, T.K. Hyster (2022) Nature 610, 302-307. "An Asymmetric sp 3 -sp 3 Cross-Electrophile Coupling Using 'Ene'-Reductases" PubMed

I.R. Taylor, P.D. Jeffrey, D.A. Moustafa, J.B. Goldberg, B.L. Bassler (2022) Biochemistry. 61, 1894-1903. "The PqsE active site as a target for small molecule antimicrobial agents against Pseudomonas aeruginosa" PubMed

J. Du, M. Estrella, K. Solorio-Kirpichyan, P.D. Jeffrey, A. Korennykh (2022) Proc Natl Acad Sci USA 119, e2200923119. "Structure of human NADK2 reveals atypical assembly and regulation of NAD kinases from animal mitochondria" PubMed

L.C. Spangler, M. Yu, P.D. Jeffrey, G.D. Scholes (2022) ACS Cent. Sci. 8, 340–350. "Controllable Phycobilin Modification: An Alternative Photoacclimation Response in Cryptophyte Algae" ACS

2021

V. Chioti, K.L. McWhorter, F. Xu, P.D. Jeffrey, K. Davis, M.R. Seyedsayamdost (2021) DOI: 10.26434/chemrxiv.14668545.v1 "Structural and Functional Analysis of Keratinicyclin Reveals Synergistic Antibiosis with Vancomycin Against Clostridium Difficile" ChemRxiv

I.R. Taylor, J.E. Paczkowski, P.D. Jeffrey, B.R. Henke, C.D. Smith, B.L. Bassler (2021) ACS Chem Biol 16, 740-752. "Inhibitor Mimetic Mutations in the Pseudomonas aeruginosa PqsE Enzyme Reveal a Protein-Protein Interaction with the Quorum-Sensing Receptor RhlR That Is Vital for Virulence Factor Production" PubMed

Jared Balaich 1, Michael Estrella 1, Guojun Wu 2, P.D. Jeffrey 1, Abhishek Biswas 1 3, Liping Zhao 2 4, Alexei Korennykh 1, Mohamed S Donia 5 6 7 (2021) Nature 600, 110-115. "The human microbiome encodes resistance to the antidiabetic drug acarbose" PubMed

2020

S. He, H-T Chou, D. Matthies, T. Wunder, M.T. Meyer, N. Atkinson, A. Martinez-Sanchez, P.D. Jeffrey, S.A. Port, W. Patena, G. He, V.K. Chen, F.M. Hughson, A.J. McCormick, O. Mueller-Cajar, B.D. Engel, Z. Yu, M.C. Jonikas (2020) Nat Plants, 6, 1480-1490. "The structural basis of Rubisco phase separation in the pyrenoid" PubMed

T.J. Eisemann, F. Allen, K. Lau, G.R. Shimamura, P.D. Jeffrey, F.M. Hughson (2020) Elife 17, e60724. "The Sec1/Munc18 protein Vps45 holds the Qa-SNARE Tlg2 in an open conformation" PubMed

S.M. Travis, K. DAmico, I-M Yu, C. McMahon, S. Hamid, G. Ramirez-Arellano, P.D. Jeffrey, Frederick M Hughson (2020) J Biol Chem 295, 10125-10135. "Structural basis for the binding of SNAREs to the multisubunit tethering complex Dsl1" PubMed

X. Huang, O.P. Duddy, J.E. Silpe, J.E. Paczkowski, J. Cong, B.R. Henke, B.L. Bassler (2020) J Biol Chem 295, 2916-2931. "Mechanism underlying autoinducer recognition in the Vibrio cholerae DPO-VqmA quorum-sensing pathway" PubMed

Y. Nakano, M.J. Black, A.J. Meichan, B.A. Sandoval, M.M. Chung, K.F. Biegasiewicz, T. Zhu, T.K. Hyster (2020) Angew Chem Int Ed Engl 59, 10484-10488. "Photoenzymatic Hydrogenation of Heteroaromatic Olefins Using 'Ene'-Reductases with Photoredox Catalysts" PubMed

2019

S.M. Travis, B. Kokona, R. Fairman, F.M. Hughson Proc Natl Acad Sci USA 116, 24031-24040. "Roles of singleton tryptophan motifs in COPI coat stability and vesicle tethering" PubMed

Y. Sugimoto, F.R. Camacho, S. Wang, P. Chankhamjon, A. Odabas, A. Biswas, P.D. Jeffrey, M.S. Donia (2019) Science 366 "A metagenomic strategy for harnessing the chemical repertoire of the human microbiome"

F. Adusei-Danso, F. Tarique Khaja, M. DeSantis, P.D. Jeffrey, E. Dubnau, B. Demeler, M.B. Neiditch, D. Dubnau (2019) mBio 10:e01841-19. "Structure-Function Studies of the Bacillus subtilis Ric Proteins Identify the Fe-S Cluster-Ligating Residues and Their Roles in Development and RNA Processing"

Q. Xie, A. Zhao, P.D. Jeffrey, M.K. Kim, B.L. Bassler, H.A. Stone, R.P. Novick, T.W. Muir (2019) Cell Chem Biol 26, 548-558 "Identification of a Molecular Latch that Regulates Staphylococcal Virulence" PubMed

K.F. Biegasiewicz, S.J. Cooper, X. Gao, D.G. Oblinsky, J. H. Kim, S.E. Garfinkle, L.A. Joyce, B.A. Sandoval, G.D. Scholes, T.K. Hyster (2019) Science 364, 1166-1169. "Photoexcitation of flavoenzymes enables a stereoselective radical cyclization" PubMed

J.E. Paczkowski, A.R. McCready, J-P Cong, Z. Li, P.D. Jeffrey, C.D. Smith, B.R. Henke, F.M. Hughson, B.L. Bassler ACS Chem Biol 14, 378-389. "An Autoinducer Analogue Reveals an Alternative Mode of Ligand Binding for the LasR Quorum-Sensing Receptor" PubMed

F.J. Piscotta, P.D. Jeffrey 2, A.J. Link (2019) Proc Natl Acad Sci USA 116, 826-834. "ParST is a widespread toxin-antitoxin module that targets nucleotide metabolism" PubMed

2016

H. Boyaci, T. Shah, A. Hurley, B. Kokona, Z. Li, C. Ventocilla, P.D. Jeffrey, M.F. Semmelhack, R. Fairman B.L. Bassler, F.M. Hughson (2016) "Structure, Regulation, and Inhibition of the Quorum-Sensing Signal Integrator LuxO." PLoS Biol., 14, e1002464. PubMed

2015

R.W. Baker, P.D. Jeffrey, M. Zick, B.P. Phillips, W.T. Wickner, F.M. Hughson (2015) Science, 349, 1111-4. "A direct role for the Sec1/Munc18-family protein Vps33 as a template for SNARE assembly." PubMed

2014

J.Y. Ha, I.D. Pokrovskaya, L.K. Climer, G.R. Shimamura, T. Kudlyk, P.D. Jeffrey, V.V. Lupashin, F.M. Hughson (2014) Proc. Natl. Acad. Sci. USA, 111, 15762-7. "Cog5-Cog7 crystal structure reveals interactions essential for the function of a multisubunit tethering complex." PubMed

2013

W. Huang, T. Jiang, W. Choi, S. Qi, Y. Pang, Q. Hu, Y. Xu, X. Gong, P.D. Jeffrey, J. Wang, Y. Shi. Genes Dev., 27, 2039-48. "Mechanistic insights into CED-4-mediated activation of CED-3." PubMed

N. Bharucha, Y. Liu, E. Papanikou, C. McMahon, M. Esaki, P.D. Jeffrey, F.M. Hughson, B.S. Glick BS (2013) Mol Biol Cell., 24, 3406-19. "Sec16 influences transitional ER sites by regulating rather than organizing COPII." PubMed

R.W. Baker, P.D. Jeffrey, F.M. Hughson (2013) PLoS One, 8, e67409. "Crystal Structures of the Sec1/Munc18 (SM) Protein Vps33, Alone and Bound to the Homotypic Fusion and Vacuolar Protein Sorting (HOPS) Subunit Vps16." PubMed

J.M. Nicoludis, S.T. Miller, P.D. Jeffrey, S.P. Barrett, P.R. Rablen, T.J. Lawton, L.A. Yatsunyk (2013) J. Am. Chem. Soc., 134, 20446-56. "Optimized end-stacking provides specificity of N-methyl mesoporphyrin IX for human telomeric G-quadruplex DNA." PubMed

2012

C. McMahon, S.M. Studer, C. Clendinen, G.P. Dann, P.D. Jeffrey, F.M. Hughson (2012) J. Biol. Chem, 287, 43599-606. "The structure of Sec12 implicates potassium ion coordination in Sar1 activation." PubMed

2011

J.W. Yu, P.D. Jeffrey, J.Y. Ha, X. Yang, Y. Shi (2011) Proc. Natl. Acad. Sci. USA, 108, 21004-9. "Crystal structure of the mucosa-associated lymphoid tissue lymphoma translocation 1 (MALT1) paracaspase region." PubMed

Chen G, Swem LR, Swem DL, Stauff DL, O'Loughlin CT, Jeffrey PD, Bassler BL, Hughson FM. Mol. Cell, 42, 199-209. "A strategy for antagonizing quorum sensing." PubMed

2009

Y. Ren, C. K. Yip, A. Tripathi, D. Huie, P. D. Jeffrey, T. Walz and F. M. Hughson (2009) "A Structure-based Mechanism for Vesicle Capture by the Multisubunit Tethering Complex Dsl1." Cell, 139, 1119-1129.

R. C. Kelly, M. E. Bolitho, D. A. Higgins, W. Lu, W.-L. Ng, P. D. Jeffrey, J. D. Rabinowitz, M. F. Semmelhack, F. M. Hughson and B. L. Bassler (2009) "The Vibrio cholerae Quorum-sending Autoinducer CAI-1: Analysis of the Biosynthetic Enzyme CqsA." Nature Chem. Biol., 5, 891-895.

J. Huhn, P. D. Jeffrey, K. Larsen, T. Rundberget, F. Rise, N. R. Cox, V. Arcus, Y. Shi and C. O. Miles (2009) "A Structural Basis for the Reduced Toxicity of Dinophysistoxin-2." Chem. Res. Toxicol., 22, 1782-1786.

D. A. Gell, L. Feng, S. Zhou, P. D. Jeffrey, K. Bendak, A. Gow, M. J. Weiss, Y. Shi, J. P. Mackay (2009) "A cis-proline in alpha-hemoglobin stabilizing protein directs the structural reorganization of alpha-hemoglobin." J. Biol. Chem., 284, 29462-29469.

B. C. Richardson, R. D. Smith, D. Ungar, A. Nakamura, P. D. Jeffrey, V. V. Lupashin, F. M. Hughson (2009) "Structural basis for a human glycosylation disorder caused by mutation of the COG4 gene." Proc. Natl. Acad. Sci. USA, 106, 13329-13334.

F. Zhang, M. Hu, G. Tian, P. Zhang, D. Finley, P. D. Jeffrey, Y. Shi (2009) "Structural Insights into the Regulatory Particle of the Proteasome from Methanocaldococcus jannashii." Mol. Cell, 34, 473-484.

A. Tripathi, Y. Ren, P. D. Jeffrey and F. M. Hughson (2009) "Structural characterization of Tip20p and Dsl1p, subunits of the Dsl1p vesicle tethering complex." Nat. Struct. Mol. Biol., 16, 114-123.

J. W. Yu, P. D. Jeffrey and Y. Shi (2009) "Mechanism of Procaspase-8 Activation by c-FLIPL." Proc. Natl. Acad. Sci. U.S.A., 106, 8169-8174.

P. D. Jeffrey (2009) "Analysis of errors in the structure determination of MsbA." Acta Cryst., D65, 193-199.

2008

Y. Xu, Y. Chen, P. Zhang, P. D. Jeffrey, Y. Shi (2008) "Structure of a protein phosphatase 2A holoenzyme: insights into B55-mediated Tau dephosphorylation." Mol. Cell, 31, 873-885

Y. Xing, Z. Li, Y. Chen, J. B. Stock, P. D. Jeffrey, Y, Shi (2008) "Structural mechanism of demethylation and inactivation of protein phosphatase 2A." Cell, 133, 154-163.

Y. Xu, L. Feng, P. D. Jeffrey, Y. Shi, F. M. Morel (2008) "Structure and metal exchange in the cadmium carbonic anhydrase of marine diatoms." Nature, 452, 56-61.

2007

L. Feng, H. Yan, Z. Wu, N. Yan, Z. Wang, P. D. Jeffrey, Y. Shi (2007) "Structure of a site-2 protease family intramembrane metalloprotease." Science, 318, 1608-1612.

G. Chen, P. D. Jeffrey, C. Fuqua, Y. Shi, L. Chen (2007) "Structural basis for antiactivation in bacterial quorum sensing." Proc. Natl. Acad. Sci. USA, 104, 16474-16479.

Y. Chen, Y. Xu, Q. Bao, Y. Xing, Z. Li, Z. Lin, J. B. Stock, P. D. Jeffrey and Y. Shi (2007) "Structural and biochemical insights into the regulation of protein phosphatase 2A by small t antigen of SV40." Nat. Struct. Mol. Biol., 14, 527-534

A. Oberstein, P. D. Jeffrey and Y. Shi (2007) "Crystal structure of the Bcl-XL-Beclin 1 peptide complex: Beclin 1 is a novel BH3-only protein." J. Biol. Chem., 287, 13123-13132.

2006

Z. Wu, N. Yang, L. Feng, A. Oberstein, H. Yan, R. P. Baker, L. Gu, P. D. Jeffrey, S. Urban and Y. Shi (2006) "Structural analysis of a rhomboid family intramembrane protease reveals a gating mechanism for substrate entry." Nature Struct. Mol. Biol., 13, 1084-1091.

Y. Xu, Y. Xing, Y. Chen, Y. Chao, Z. Lin, E. Fan, J.W. Yu, S. Strack, P. D. Jeffrey, Y. Shi (2006) "Structure of the protein phosphatase 2A holoenzyme". Cell 127, 1239-1251.

Z. Wu, N. Yan, L. Feng, A. Oberstein, H. Yan, R.P. Baker, L. Gu, P.D. Jeffrey, S. Urban, Y. Shi (2006) "Structural analysis of a rhomboid family intramembrane protease reveals a gating mechanism for substrate entry". Nat Struct Mol Biol. 13, 1084-1091.

Y. Xing, Y. Xu, Y. Chen, P.D. Jeffrey, Y. Chao, Z. Lin, Z. Li, S. Strack, J.B. Stock, Y. Shi (2006) "Structure of protein phosphatase 2A core enzyme bound to tumor-inducing toxins." Cell 127, 341-353.

M.B. Neiditch MB, M.J. Federle, A.J. Pompeani, R.C. Kelly, D.L. Swem, P.D. Jeffrey, B.L. Bassler, F.M. Hughson (2006) "Ligand-induced asymmetry in histidine sensor kinase complex regulates quorum sensing." Cell 126, 1095-1108

Y. Chao, Y. Xing, Y. Chen, Y. Xu, Z. Lin, Z. Li, P.D. Jeffrey, J.B. Stock, Y. Shi Y (2006) "Structure and mechanism of the phosphotyrosyl phosphatase activator." Mol Cell 23, 535-546

N. Yan, J.R. Huh, V. Schirf, B. Demeler, B.A. Hay, Y. Shi (2006) "Structure and activation mechanism of the Drosophila initiator caspase Dronc." J. Biol. Chem. 281, 8667-74.

M. Hu, L. Gu, M. Li, P. D. Jeffrey, W. Gu, Y. Shi (2006) "Structural basis of competitive recognition of p53 and MDM2 by HAUSP/USP7: implications for the regulation of the p53-MDM2 pathway". PLoS Biol 4, 228-239.

F. Y. Li, P. D. Jeffrey, J. W. Yu, Y. Shi (2006) "Crystal structure of a Viral FLIP: Insights into FLIP-mediated inhibition of death receptor signaling". J. Biol. Chem., 281, 2960-2968.

2005

M.B. Neiditch, M.J. Federle, S.T. Miller, B.L. Bassler, F.M. Hughson (2005) "Regulation of LuxPQ receptor activity by the quorum-sensing signal autoinducer-2." Mol. Cell, 18, 507-18.

N. Yan, J. Chai, E.S. Lee, L. Gu, Q. Liu, J. He, J.W. Wu, D. Kokel, H. Li, Q. Hao, D. Xue, Y. Shi (2005) "Structure of the CED-4-CED-9 complex provides insights into programmed cell death in Caenorhabditis elegans." Nature, 437, 831-7.

M. Hu, P. Li, L. Song, P. D. Jeffrey, T. A. Chenova, K. D. Wilkinson, R. E. Cohen, Y. Shi (2005) "Structure and mechanisms of the proteasome-associated deubiquitinating enzyme USP14". EMBO J., 24, 3747-3756.

S.J. Riedl, W. Li, Y. Chao, R. Schwarzenbacher, Y. Shi (2005) "Structure of the apoptotic protease-activating factor 1 bound to ADP." Nature, 434, 926-33.