Publications

2021

  1. Strand A, Shen ST, Tomchick DR, Wang J, Wang CR, Deisenhofer J.
    "Structure and dynamics of major histocompatibility class Ib molecule H2-M3 complexed with mitochondrial-derived peptides." J Biomol Struct Dyn. 2021 Jun 28:1-13. doi: 10.1080/07391102.2021.1942214. Epub ahead of print. PMID: 34176438; PMCID: PMC8722451
  2. Osinski A, Black MH, Pawłowski K, Chen Z, Li Y, Tagliabracci VS.
    "Structural and mechanistic basis for protein glutamylation by the kinase fold." Mol Cell. 2021 Nov 4;81(21):4527-4539.e8. doi: 10.1016/j.molcel.2021.08.007. Epub 2021 Aug 17. PMID: 34407442; PMCID: PMC8571041
  3. Hsieh TS, Lopez VA, Black MH, Osinski A, Pawłowski K, Tomchick DR, Liou J, Tagliabracci VS.
    "Dynamic remodeling of host membranes by self-organizing bacterial effectors." Science. 2021 May 28;372(6545):935-941. doi: 10.1126/science.aay8118. Epub 2021 Apr 29. PMID: 33927055; PMCID: PMC8543759
  4. Palmer MJ, Deng X, Watts S, Krilov G, Gerasyuto A, Kokkonda S, El Mazouni F, White J, White KL, Striepen J, Bath J, Schindler KA, Yeo T, Shackleford DM, Mok S, Deni I, Lawong A, Huang A, Chen G, Wang W, Jayaseelan J, Katneni K, Patil R, Saunders J, Shahi SP, Chittimalla R, Angulo-Barturen I, Jiménez-Díaz MB, Wittlin S, Tumwebaze PK, Rosenthal PJ, Cooper RA, Aguiar ACC, Guido RVC, Pereira DB, Mittal N, Winzeler EA, Tomchick DR, Laleu B, Burrows JN, Rathod PK, Fidock DA, Charman SA, Phillips MA.
    "Potent Antimalarials with Development Potential Identified by Structure-Guided Computational Optimization of a Pyrrole-Based Dihydroorotate Dehydrogenase Inhibitor Series". J Med Chem. 2021 May 13;64(9):6085-6136. doi: 10.1021/acs.jmedchem.1c00173. Epub 2021 Apr 20. PMID: 33876936; PMCID: PMC8171248
  5. Li B, Deng X, Kim SH, Buhrow L, Tomchick DR, Phillips MA, Michael AJ.
    "Alternative pathways utilize or circumvent putrescine for the biosynthesis of putrescine-containing rhizoferrin." J Biol Chem. 2021 Jan-Jun;296:100146. doi: 10.1074/jbc.RA120.016738. Epub 2020 Dec 10. PMID: 33277357; PMCID: PMC7857480

2020

  1. Peng W, Casey AK, Fernandez J, Carpinone EM, Servage KA, Chen Z, Li Y, Tomchick DR, Starai VJ, Orth K
    "A distinct inhibitory mechanism of the V-ATPase by Vibrio VopQ revealed by cryo-EM." Nat Struct Mol Biol. 2020 Jun;27(6):589-597. doi: 10.1038/s41594-020-0429-1. Epub 2020 May 18. PMID: 32424347
  2. Jiao L, Shubbar M, Yang X, Zhang Q, Chen S, Wu Q, Chen Z, Rizo J, Liu X.
    "A partially disordered region connects gene repression and activation functions of EZH2." Proc Natl Acad Sci U S A. 2020 Jul 21;117(29):16992-17002. doi: 10.1073/pnas.1914866117. Epub 2020 Jul 6. PMID: 32631994; PMCID: PMC7382310
  3. Kokkonda S, Deng X, White KL, El Mazouni F, White J, Shackleford DM, Katneni K, Chiu FCK, Barker H, McLaren J, Crighton E, Chen G, Angulo-Barturen I, Jimenez-Diaz MB, Ferrer S, Huertas-Valentin L, Martinez-Martinez MS, Lafuente-Monasterio MJ, Chittimalla R, Shahi SP, Wittlin S, Waterson D, Burrows JN, Matthews D, Tomchick D, Rathod PK, Palmer MJ, Charman SA, Phillips MA.
    "Lead Optimization of a Pyrrole-Based Dihydroorotate Dehydrogenase Inhibitor Series for the Treatment of Malaria." J Med Chem. 2020 May 14;63(9):4929-4956. doi: 10.1021/acs.jmedchem.0c00311. Epub 2020 Apr 16. PMID: 32248693; PMCID: PMC7394244
  4. Sreelatha A, Nolan C, Park BC, Pawłowski K, Tomchick DR, Tagliabracci VS.
    "A Legionella effector kinase is activated by host inositol hexakisphosphate." J Biol Chem. 2020 May 1;295(18):6214-6224. doi: 10.1074/jbc.RA120.013067. Epub 2020 Mar 30. PMID: 32229585; PMCID: PMC7196655
  5. Zhong X, Su L, Yang Y, Nair-Gill E, Tang M, Anderton P, Li X, Wang J, Zhan X, Tomchick DR, Brautigam CA, Moresco EMY, Choi JH, Beutler B.
    "Genetic and structural studies of RABL3 reveal an essential role in lymphoid development and function." Proc Natl Acad Sci U S A. 2020 Apr 14;117(15):8563-8572. doi: 10.1073/pnas.2000703117. Epub 2020 Mar 27. PMID: 32220963; PMCID: PMC7165429

2019

  1. Lopez VA, Park BC, Nowak D, Sreelatha A, Zembek P, Fernandez J, Servage KA, Gradowski M, Hennig J, Tomchick DR, Pawłowski K, Krzymowska M, Tagliabracci VS.
    "A Bacterial Effector Mimics a Host HSP90 Client to Undermine Immunity." Cell. 2019 Sep 19;179(1):205-218.e21. doi: 10.1016/j.cell.2019.08.020. Epub 2019 Sep 12. PMID: 31522888; PMCID: PMC6754304.
  2. Black MH, Osinski A, Gradowski M, Servage KA, Pawłowski K, Tomchick DR, Tagliabracci VS.
    "Bacterial pseudokinase catalyzes protein polyglutamylation to inhibit the SidE-family ubiquitin ligases." Science. 2019 May 24;364(6442):787-792. doi: 10.1126/science.aaw7446. PMID: 31123136; PMCID: PMC6767918.
  3. Peng W, de Souza Santos M, Li Y, Tomchick DR, Orth K.
    "High-resolution cryo-EM structures of the E. coli hemolysin ClyA oligomers." PLoS One. 2019 May 2;14(5):e0213423. doi: 10.1371/journal.pone.0213423. PMID: 31048915; PMCID: PMC6497250.
  4. Padavannil A, Sarkar P, Kim SJ, Cagatay T, Jiou J, Brautigam CA, Tomchick DR, Sali A, D'Arcy S, Chook YM.
    "Importin-9 wraps around the H2A-H2B core to act as nuclear importer and histone chaperone." Elife. 2019 Mar 11;8:e43630. doi: 10.7554/eLife.43630. PMID: 30855230; PMCID: PMC6453568.
  5. Li F, Raczynska JE, Chen Z, Yu H.
    "Structural Insight into DNA-Dependent Activation of Human Metalloprotease Spartan." Cell Rep. 2019 Mar 19;26(12):3336-3346.e4. doi: 10.1016/j.celrep.2019.02.082. PMID: 30893605.
  6. Endapally S, Frias D, Grzemska M, Gay A, Tomchick DR, Radhakrishnan A.
    "Molecular Discrimination between Two Conformations of Sphingomyelin in Plasma Membranes." Cell. 2019 Feb 21;176(5):1040-1053.e17. doi: 10.1016/j.cell.2018.12.042. Epub 2019 Jan 31. PMID: 30712872; PMCID: PMC6428426.
  7. White J, Dhingra SK, Deng X, El Mazouni F, Lee MCS, Afanador GA, Lawong A, Tomchick DR, Ng CL, Bath J, Rathod PK, Fidock DA, Phillips MA.
    "Identification and Mechanistic Understanding of Dihydroorotate Dehydrogenase Point Mutations in Plasmodium falciparum that Confer in Vitro Resistance to the Clinical Candidate DSM265." ACS Infect Dis. 2019 Jan 11;5(1):90-101. doi: 10.1021/acsinfecdis.8b00211. Epub 2018 Nov 13. PMID: 30375858; PMCID: PMC6467762.

2018

  1. Maziarz M, Leyme A, Marivin A, Luebbers A, Patel PP, Chen Z, Sprang SR, Garcia-Marcos M.
    "Atypical activation of the G protein Gαq by the oncogenic mutation Q209P." J Biol Chem. 2018 Dec 21;293(51):19586-19599. doi: 10.1074/jbc.RA118.005291. Epub 2018 Oct 23. PMID: 30352874; PMCID: PMC6314142.
  2. Afanador GA, Tomchick DR, Phillips MA.
    "Trypanosomatid Deoxyhypusine Synthase Activity Is Dependent on Shared Active-Site Complementation between Pseudoenzyme Paralogs." Structure. 2018 Nov 6;26(11):1499-1512.e5. doi: 10.1016/j.str.2018.07.012. Epub 2018 Sep 6. PMID: 30197036; PMCID: PMC6221947.
  3. Sreelatha A, Yee SS, Lopez VA, Park BC, Kinch LN, Pilch S, Servage KA, Zhang J, Jiou J, Karasiewicz-Urbańska M, Łobocka M, Grishin NV, Orth K, Kucharczyk R, Pawłowski K, Tomchick DR, Tagliabracci VS.
    "Protein AMPylation by an Evolutionarily Conserved Pseudokinase." Cell. 2018 Oct 18;175(3):809-821.e19. doi: 10.1016/j.cell.2018.08.046. Epub 2018 Sep 27. PMID: 30270044; PMCID: PMC6524645.
  4. Majumdar S, Kim T, Chen Z, Munyoki S, Tso SC, Brautigam CA, Rice LM.
    "An isolated CLASP TOG domain suppresses microtubule catastrophe and promotes rescue." Mol Biol Cell. 2018 Jun 1;29(11):1359-1375. doi: 10.1091/mbc.E17-12-0748. Epub 2018 Apr 5. PMID: 29851564; PMCID: PMC5994897.
  5. Chen Z, Gutowski S, Sternweis PC.
    "Crystal structures of the PH domains from Lbc family of RhoGEFs bound to activated RhoA GTPase." Data Brief. 2018 Feb 20;17:356-362. doi: 10.1016/j.dib.2018.01.024. PMID: 29876405; PMCID: PMC5988292.
  6. Dada O, Gutowski S, Brautigam CA, Chen Z, Sternweis PC.
    "Direct regulation of p190RhoGEF by activated Rho and Rac GTPases." J Struct Biol. 2018 Apr;202(1):13-24. doi: 10.1016/j.jsb.2017.11.014. Epub 2017 Nov 28. PMID: 29196061; PMCID: PMC5835413.

2017

  1. Bae SJ, Ni L, Osinski A, Tomchick DR, Brautigam CA, Luo X.
    "SAV1 promotes Hippo kinase activation through antagonizing the PP2A phosphatase STRIPAK." Elife. 2017 Oct 24;6:e30278. doi: 10.7554/eLife.30278. PMID: 29063833; PMCID: PMC5663475.
  2. Voleti R, Tomchick DR, Südhof TC, Rizo J.
    "Exceptionally tight membrane-binding may explain the key role of the synaptotagmin-7 C2 A domain in asynchronous neurotransmitter release." Proc Natl Acad Sci U S A. 2017 Oct 3;114(40): E8518-E8527. doi: 10.1073/pnas.1710708114. Epub 2017 Sep 18. PMID: 28923929; PMCID: PMC5635908.
  3. Brautigam CA, Deka RK, Liu WZ, Tomchick DR, Norgard MV.
    "Functional clues from the crystal structure of an orphan periplasmic ligand-binding protein from Treponema pallidum." Protein Sci. 2017 Apr;26(4):847-856. doi: 10.1002/pro.3133. Epub 2017 Mar 23. PMID: 28168761; PMCID: PMC5368063.
  4. Xu J, Camacho M, Xu Y, Esser V, Liu X, Trimbuch T, Pan YZ, Ma C, Tomchick DR, Rosenmund C, Rizo J.
    "Mechanistic insights into neurotransmitter release and presynaptic plasticity from the crystal structure of Munc13-1 C1 C2 BMUN." Elife. 2017 Feb 8;6:e22567. doi: 10.7554/eLife.22567. PMID: 28177287; PMCID: PMC5344669.

2016

  1. Li P., Rivera-Cancel G., Kinch L.N., Salomon D., Tomchick D.R., Grishin N.V., Orth K. (2016) Bile salt receptor complex activates a pathogenic type III secretion system. Elife 5:e15718. PMID: 27377244
  2. Phillips M.A., White K.L., Kokkonda S., Deng X., White J., El Mazouni F., Marsh K.C., Tomchick D.R., Manjalanagara K., Rudra K.R., Wirjanata G., Noviyanti R., Price R.N., Marfurt J., Shackleford D.M., Chiu F.C., Campbell M., Jimenez Diaz M.B., Ferrer-Bazaga S., Angulo-Barturen I., Martínez-Martínez M.S., Lafuente-Monasterio M.J., Kaminsky W., Silue K., Zeeman A.M., Kocken C., Leroy D., Blasco B., Rossignol E., Rueckle T., Matthews D., Burrows J.N., Waterson D., Palmer M.J., Rathod P.K., Charman S.A. (2016) A triazolopyrimidine-based dihydroorotate dehydrogenase inhibitor (DSM421) with improved drug-like properties for treatment and prevention of malaria. ACS Infect Dis. 2:945-957. PMID: 27641613
  3. Kikuchi S., Borek D.M., Otwinowski Z., Tomchick D.R., Yu H. (2016) Crystal structure of the cohesion loader Scc2 and insight into cohesinopathy. Proc Natl Acad Sci USA 113:12444-12449. PMID: 27791135.
  4. Volkov O.A., Kinch L.N., Ariagno C., Deng X., Zhong S., Grishin N.V., Tomchick D.R., Chen Z., Phillips M.A. (2016) Relief of autoinhibition by conformational switch explains enzyme activation by a catalytically dead paralog. Elife 5:e20198. PMID: 27977001
  5. Deka R.K., Brautigam C.A., Liu W.Z., Tomchick D.R., Norgard M.V. (2016) Molecular insights into the enzymatic diversity of flavin-trafficking protein (Ftp; formerly ApbE) in flavoprotein biogenesis in the bacterial periplasm. MicrobiologyOpen 5:21-38. PMID: 26626129
  6. Dodd D.W., Tomchick D.R., Corey D.R., Gagnon K.T. (2016) Pathogenic C9ORF72 antisense repeat RNA forms a double helix with tandem C: C mismatches. Biochemistry 55:1283-6. PMID: 26878348
  7. Ouyang Z., Zheng G., Tomchick D.R., Luo X., Yu H. (2016) Structural basis and IP6 requirement for Pds5-dependent cohesion dynamics. Mol Cell 62:248-59. PMID: 26971492
  8. Kokkonda S., Deng X., White K.L., Coterón J.M., Marco M., de Las Heras L., White J., El Mazouni F., Tomchick D.R., Manjalanagara K., Rudra K.R., Chen G., Morizzi J., Ryan E., Kaminsky W., Leroy D., Martínez-Martínez M.S., Jimenez Diaz M.B., Bazaga S.F., Angulo-Barturen I., Waterson D., Burrows J.N., Matthews D., Charman S.A., Phillips M.A., Rathod P.K. (2016) Tetrahydro-2-napthyl and 2-indanyl triazolopyrimidines targeting Plasmodium falciparum dihydroorotate dehydrogenase display potent and selective antimalarial activity. J Med Chem 59:5416-31. PMID: 27127993
  9. Nguyen K.B., Sreelatha A., Durrant E., Lopez-Garrido J., Muszewska A., Dudkiewicz M., Grynberg M., Yee S.S., Pogliano K., Tomchick D.R., Pawlowski K., Dixon J.E., Tagliabracci V.S. (2016) Phosphorylation of spore coat proteins by a new family of kinases. Proc Natl Acad Sci USA 113:E3482-E3491. PMID: 27185916

2015

  1. Guo Y., Scheuermann T.H., Partch C.L., Tomchick D.R., Gardner, K.H. (2015) Coiled-coil coactivators play a structural role mediating interactions in hypoxia-inducible factor heterodimerization. J Biol Chem 290:7707-7721. PMID: 25627682
  2. Deka R.K., Brautigam C.A., Liu W.Z., Tomchick D.R., Norgard M.V. (2015) Evidence for posttranslational protein flavinylation in the syphilis spirochete Treponema pallidum: structural and biochemical insights from the catalytic core of periplasmic flavin-trafficking protein. mBio 6:e00519-15. PMID: 25944861
  3. Brewer K.D., Bacaj T., Cavalli A., Camilloni C., Swarbrick J.D., Liu J., Zhou A., Zhou P., Barlow N., Xu J., Seven A.B., Prinslow E.A., Voleti R., Häussinger D., Bonvin A.M.J.J., Tomchick D.R., Vendruscolo M., Graham B., Südhof T.C., Rizo J. (2015) Dynamic synaptotagmin-1-SNARE complex binding mode in solution. Nat Struct Mol Biol 22:555-64. PMID: 26030874
  4. Phillips M.A., Lotharius J., Marsh K., White J., Dayan A., White K.L., Njoroge J.W., El Mazouni F., Lao Y., Kokkonda S., Tomchick D.R., Deng X., Laird T., Bhatia S.N., March S., Ng C.L., Fidock D.A., Wittlin S., Lafuente-Monasterio M., Benito F.J., Alonso L.M., Martinez M.S., Jimenez-Diaz M.B., Bazaga S.F., Angulo-Barturen I., Haselden J.N., Louttit J., Cui Y., Sridhar A., Zeeman A.M., Kocken C., Sauerwein R., Dechering K., Avery V.M., Duffy S., Delves M., Sinden R., Ruecker A., Wickham K.S., Rochford R., Gahagen J., Iyer L., Riccio E., Mirsalis J., Bathhurst I., Rueckle T., Ding X., Campo B., Leroy D., Rogers M.J., Rathod P.K., Burrows J.N., Charman S.A. (2015) A long-duration dihydroorotate dehydrogenase inhibitor (DSM265) for prevention and treatment of malaria. Sci Transl Med 7:296ra111. PMID: 26180101
  5. Pascoe, H.G., Gutowski, S., Chen, H., Brautigam, C.A., Chen, Z., Sternweis, P.C. and Zhang, X. (2015) “Secondary PDZ domain-binding site on class B plexins enhances the affinity for PDZ-RhoGEF” Proc. Natl. Acad. Sci..112 (48): 14852-57.

2014

  1. Fortune D.E., Lin Y.-P., Deka R.K., Groshong A.M., Hagman K.E., Leong J.M., Tomchick D.R., Blevins J.S. (2014) Identification of lysine residues in the Borrelia burgdorferi DbpA adhesin required for murine infection. Infect Immun 82:3186-3198. PMID: 24842928
  2. Hara K., Zheng G., Qu Q., Liu H., Ouyang Z., Chen Z., Tomchick D.R., Yu H. (2014) Structure of cohesion subcomplex pinpoints direct shugoshin-Wapl antagonism in centromeric cohesion. Nat Struct Mol Biol 21:864-870. PMID: 25173175
  3. Lin Z., Jia L., Tomchick D.R., Luo X., Yu H. (2014) Substrate-specific activation of the mitotic kinase Bub1 through intramolecular autophosphorylation and kinetochore targeting. Structure 22:1616-1627. PMID: 25308863
  4. Rivera-Cancel G., Ko W.-H., Tomchick D.R., Correa F., Gardner K.H. (2014) Full-length structure of a monomeric histidine kinase reveals basis for sensory regulation. Proc Natl Acad Sci USA 111:17839-44. PMID: 25468971
  5. Hunter, J., Gurbani, D., Ficarro, S.B., Carrasco, M., Lim, S.M., Choi, H.G., Xie, T., Marto, J.A., Chen, Z., Gray, N.S. and Westover, K.D. (2014) “In situ Selectivity Profiling and Crystal Structure of SML-8-73-1, an Active Site Inhibitor of Oncogenic K-Ras G12C” Proc. Natl. Acad. Sci. 111(24): 8895-8900.
  6. Zhang, X., Wu, J., Du, F., Xu, H., Sun, L., Chen, Z., Brautigam, C. A., Zhang, X. and Chen, Z. J. (2014) “The Cytosolic DNA Sensor cGAS Forms An Oligomeric Complex with DNA and Undergoes Switch-like Conformational Changes in the Activation Loop” Cell Report 6(3): 421-30.

2013

  1. Deka R.K., Brautigam C.A., Liu W.Z., Tomchick D.R., Norgard M.V. (2013). The TP0796 lipoprotein of Treponema pallidum is a bimetal-dependent FAD pyrophosphatase with a potential role in flavin homeostasis. J Biol Chem 16:11106-11121. PMID: 23447540
  2. Ouyang Z., Zheng G., Song J., Borek D.M., Otwinowski Z., Brautigam C.A., Tomchick D.R., Rankin S., Yu H. (2013) Structure of the human cohesion inhibitor Wapl. Proc Natl Acad Sci USA110: 11355-60. PMID: 23776203
  3. Ni L., Li S., Yu J., Min J., Brautigam C.A., Tomchick D.R., Pan D., Luo X. (2013) Structural basis for autoactivation of human Mst2 kinase and its regulation by RASSF5. Structure 21: 1757-68. PMID: 23972470. PMID: 23972470
  4. Zahm J.A., Padrick S.B., Chen Z., Pak C.W., Yunus A.A., Henry L., Tomchick D.R., Chen Z., Rosen M.K. (2013) The bacterial effector VopL organizes actin into filament-like structures. Cell 155: 423-434. PMID: 24120140
  5. Medina, F., Carter, A., Dada, O., Gutowski, S., Hadas, J., Chen, Z. and Sternweis, P. C. (2013) "Activated RhoA Is a Positive Feedback Regulator of the Lbc Family of Rho Guanine Nucleotide Exchange Factor Proteins” J. Biol Chem 288: 11325-33.

2012

  1. Thompson J.W., Salahudeen A.A., Chollangi S., Ruiz J.C., Brautigam C.A., Makris T.M., Lipscomb J.D., Tomchick D.R., Bruick R.K. (2012) Structural and molecular characterization of the iron-sensing hemerythrin-like domain within F-box and Leucine-rich Repeat Protein 5 (FBXL5). J Biol Chem 287:7357-7365. PMID: 22253436
  2. Deka R.K., Brautigam C.A., Goldberg M., Schuck P., Tomchick D.R., Norgard M.V. (2012) Structural, bioinformatic, and in vivo analyses of two Treponema pallidum lipoproteins reveal a unique TRAP transporter. J Mol Biol 416:678-696. PMID: 22306465
  3. Matos M.M., Xu Y., Dulubova I., Otwinowski Z., Richardson J.M., Tomchick D.R., Rizo J., Ho A. (2012) Autoinhibition of Mint1 adaptor protein regulates APP binding and processing. Proc Natl Acad Sci USA 109:3802-3807. PMID: 22355143
  4. Kim S., Sun H., Tomchick D.R., Yu H., Luo X. (2012) Structure of human Mad1 C-terminal domain reveals its involvement in kinetochore targeting. Proc Natl Acad Sci USA 109:6549-6554. PMID: 22493223
  5. Brautigam C.A., Deka R.K., Schuck P. Tomchick D.R., Norgard M.V. (2012) Structural and thermodynamic characterization of the interaction between two periplasmic Treponema pallidum lipoproteins that are components of a TPR-protein-associated TRAP transporter (TPAT). J Mol Biol 420:70-86. PMID: 22504226
  6. Brautigam C.A., Deka R.K., Ouyang Z., Machius M., Knutsen G., Tomchick D.R., Norgard M.V. (2012). Biophysical and bioinformatics analyses implicate the Treponema pallidum Tp34 lipoprotein in transition metal homeostasis. J Bacteriol 194:6771-6781. PMID 23042995
  7. Tian W., Li B., Warrington R., Tomchick D.R., Yu H., Luo X. (2012) Structural analysis of human Cdc20 supports multi-site degron recognition by APC/C. Proc Natl Acad Sci USA 109:18419-24. PMID 23091007
  8. Chen, Z., Guo, L., Hadas, J., Sprang, S. R. and Sternweis, P. C. (2012) "Activation of the Guanine Nucleotide Exchange Activity of p115-RhoGEF Requires Direct Association of Ga13 and the Dbl-homology Domain" J. Biol Chem 287: 16369-77.

2011

Li W., Ma C., Guan R., Xu Y., Tomchick D.R., Rizo J. (2011). The crystal structure of a Munc13 C-terminal module exhibits a remarkable similarity to vesicle tethering factors. Structure, 19, 1443-1455. [PubMed]

Haines, D.C., Hegde, A., Chen, B., Zhao, W., Bondlela, M., Humphreys, J.M., Mullin, D.A., Tomchick, D.R., Machius, M., Peterson, J.A. (2011). A single active-site mutation of P450BM-3 dramatically enhances substrate binding and the rate of product formation. Biochemistry, 50, 8333-8341.[PubMed]

Yu, B., Cheng ,H.C., Brautigam, C.A., Tomchick ,D.R., Rosen, M.K. (2011). Mechanism of actin filament nucleation by the bacterial effector VopL.Nat. Struct. Molec. Biol., 18, 1068-1074. [PubMed]

Padrick, S.B., Doolittle, L.K., Brautigam, C.A., King, D.S., Rosen, M.K. (2011). Arp2/3 complex is bound and activated by two WASP proteins. Proc. Natl. Acad. Sci., 108, E472-E479. [PubMed]

Brautigam, C.A., Wynn, R.M., Chuang, J.L., Naik, M.T., Young, B.B., Huang, T. & Chuang, D.T. (2011). Structural and thermodynamic basis for weak interactions between dihydrolipoamide dehydrogenase and subunit-binding domain of the branched-chain alpha-ketoacid dehydrogenase complex. J. Biol. Chem., 286, 23478-23488. [PubMed]

Kang, J., Chaudhury, J. Dong, H., Brautigam, C.A., & Yu, H. (2011). INCENP-mediated mitotic centromere targeting and Sgo1 binding of HP1 are dispensable for sister-chromatid cohesion in human cells. Mol. Biol. Cell, 22, 1181-1190. [PubMed]

Padrick, S.B. & Brautigam, C.A. (2011). Evaluating the stoichiometry of macromolecular complexes using multisignal sedimentation velocity. Methods, in press. [PubMed]

Brautigam, C.A. (2011). Using Lamm-Equation modeling of sedimentation velocity data to determine the kinetic and thermodynamic properties of macromolecular interactions. Methods, in press. [PubMed]

Hoopman, T.C., Liu, W., Joslin, S.N., Pybus, C., Brautigam, C.A., & Hansen, E.J. (2011). Identification of gene products involved in the oxidative stress response of Moraxella catarrhalis. Infect. Immun., 79, 745-755. [PubMed]

Selyunin, A.S., Sutton, S.E., Weigele, B.A., Reddick, L.E., Orchard, R.C., Bresson, S.M. Tomchick, D.R., & Alto, N.M. (2011). The assembly of a GTPase-kinase signaling complex by a bacterial catalytic scaffold. Nature, 469, 107-111. [PubMed]

Chen, Z., Guo, L., Sprang, S. R. and Sternweis, P. C. (2011) "Modulation of a GEF Switch: Autoinhibition of the Intrinsic Guanine Nucleotide Exchange Activity of p115-RhoGEF." Protein Science 20: 107-117.

2010

Dorwart, M.R., Wray, R., Brautigam, C.A., Jiang, Y. & Blount, P. (2010). S. aureus MscL is a pentamer in vivo but of variable stoichiometries in vitro: implications for detergent-solubilized membrane proteins. PLoS Biology, 8, e1000555. [Read the article]

Otomo, T., Tomchick, D.R., Otomo, C, Machius, M., & Rosen, M.K. (2010). Crystal structure of the Formin mDia1 in autoinhibited conformation. PLoS One, 5, e12896. [Read the article]

Xue, M., Craig, T.K., Shin, O.H., Yi, L., Brautigam, C.A., Tomchick, D.R., Sudhof, T.C., Rosenmund, C., & Rizo, J. (2010). Structural and mutational analysis of functional differentiation between synaptotagmins-1 and -7. PLoS One, 5, e12544. [Read the article]

Labandeira-Rey, M., Brautigam, C.A., & Hansen, E.J. (2010) Initial characterization of the CpxRA proteins and the associated regulon in Haemophilus ducreyi. Infect. Immun., 78, 4779-4791. [PubMed]

Padrick, S.B., Deka, R.K., Chuang, J.L., Wynn, R.M., Chuang, D.T., Norgard, M.V., Rosen, M.K., & Brautigam, C.A. (2010). Determination of protein complex stoichiometry through multisignal sedimentation velocity experiments. Anal. Biochem., 407, 89-103. [PubMed]

Deng, X., Lee, J., Michael, A.J., Tomchick, D.R., Goldsmith, E.J., & Phillips, M.A. (2010). Evolution of substrate specificity within a diverse family of b/a-barrel-fold basic amino acid decarboxylases: X-ray structure determination of enzymes with specificity for L-arginine and carboxynorspermidine. J. Biol. Chem., 285, 25708-25719. [PubMed]

Luong, P., Kinch, L.N, Brautigam, C.A., Grishin, N.V., Tomchick, D.R., & Orth, K. (2010). Kinetic and structural insights into the mechanism of AMPylation by VopS FIC domain. J. Biol. Chem., 285, 20155-20163. [PubMed]

Tian, W., Yu, J., Tomchick, D.R., Pan, D., & Luo, X. (2010). Structural and functional analysis of the YAP-binding domain of human TEAD2. Proc. Natl. Acad. Sci (USA), 107, 7293-7298.

Shin O.H., Lu, J. Rhee, J.S., Tomchick, D.R. Pang, Z.P., Wojcik, S.M., Camacho-Preez, M., Brose, N., Machius, M., Rizo, J., Rosenmund, C., & Sudhof, T.C. (2010). Munc13 C2B domain is an activity-dependent Ca2+ regulator of synaptic exocytosis. Nat. Struct. Mol. Biol., 17, 280-288.

Yu, B., Martins, I.R., Li, P., Amarasinghe G.K., Umetani, J., Fernandez-Zapico, M.E., Billadeau, D.D., Machius, M., Tomchick, D.R., & Rosen, M.K. (2010). Structural and energetic mechanisms of cooperative autoinhibition and activation of Vav1. Cell, 140, 246-256.

2009

Attia, A.S., Sedillo, J.L., Hoopman, T.C., Liu, W., Liu, L., Brautigam, C.A., & Hansen, E.J. (2009). Identification of a bacteriocin and its cognate immunity factor expressed by Moraxella catarrhalis. BMC Microbiol., 9, 207.

Huerta, C., Borek, D., Machius, M., Grishin, N.V., & Zhang, H. (2009). Structure and mechanism of a eukaryotic FMN adenylyltransferase. J. Mol. Biol., 389, 388-400.

Brautigam, C.A., Wynn, R.M., Chuang, J.L., & Chuang, D.T. (2009). Subunit and catalytic component stoichiometries of an in vitro reconstituted human pyruvate dehydrogenase complex. J. Biol. Chem., 284, 13086-13098.

Davis, L., Abdi, K., Machius, M., Brautigam, C., Tomchick, D.R., Bennett, V., Michaely, P. (2009). Localization and structure of the ankyrin-binding site on beta2-spectrin. J. Biol. Chem., 284, 6982-6987.

Scheuermann, T.H., Tomchick, D.R., Machius, M., Guo, Y., Bruick, R.K., Gardner, K.H. (2009). Artificial ligand binding within the HIF2alpha PAS-B domain of the HIF2 transcription factor. Proc. Natl. Acad. Sci. USA, 106, 450-455.

2008

Kato, M., Wynn, R.M., Chuang, J.L., Tso, S.C., Machius, M., Li, J., & Chuang, D.T. (2008). Structural basis for inactivation of the human pyruvate dehydrogenase complex by phosphorylation: role of disordered phosphorylation loops. Structure, 16, 1849-1859.

Padrick, S.B., Cheng, H.C., Ismail, A.M., Panchal, S.C., Doolittle L.K., Kim, S., Skehan, B.M., Umetani, J., Brautigam, C.A., Leong, J.M., Rosen, M.K. (2008). Hierarchical regulation of WASP/WAVE proteins. Mol. Cell, 32, 426-438.

Kang, J., Yang, M., Li, B., Qi, W., Zhang, C., Shokat, K.M., Tomchick, D.R., Machius, M., & Yu, H. (2008). Structure and substrate recruitment of the human spindle checkpoint kinase Bub1. Mol. Cell, 32, 394-405.

Rezacova, P., Kozisek, M., Moy, S.F., Sieglova, I., Joachimiak, A., Machius, M., & Otwinowski, Z. (2008). Crystal structures of the effoector -binding domain of repressor CggR from Bacillus subtilis reveal ligand-induced structural changes upon binding of several glycolytic intermediates. Mol. Microbiol., 69, 895-910.

Attia, A.S., Sedillo, J.L., Wang, W., Liu, W., Brautigam, C.A., Winkler, W., & Hansen, E.J. (2008). Moraxella catarrhalis expresses an unusual Hfq protein. Infect. Immun., 76, 2520-2530.

Lee, J., Tomchick, D.R., Brautigam, C.A., Machius, M., Kort, R., Hellingwerf, H.J., & Gardner, K.H. (2008). Changes at the KinA PAS-A dimerization interface influence histidine kinase function. Biochemistry, 47, 4051-4064.

Yang, M., Li, B. Liu, C.J., Tomchick, D.R., Machius, M., Rizo, J., Yu, H., Luo, X. (2008). Insights into mad2 regulation in the spindle checkpoint revealed by the crystal structure of the symmetric mad2 dimer. PLoS Biol., 6, e50.

Haines, D.C., Chen, B., Tomchick, D.R., Bondlela, M., Hegde, A., Machius, M., & Peterson, J.A. (2008). Crystal structure of inhibitor-bound P450BM-3 reveals open conformation of substrate access channel. Biochemistry, 47, 3662-3670.

Huang, N., Sorci, L., Zhang, X., Brautigam, C., Li, X., Raffaelli, N., Magni, G., Grishin, N.V., Osterman, A., & Zhang, H. (2008). Bifunctional NMN adenylyltransferase/ADP ribose pyrophosphatase: structure and function in bacterial NAD metabolism. Structure, 16, 196-209.

Hoopman, T.C., Wang, W., Brautigam, C.A., Reilly, T.J., and Hansen, E.J. (2008). Moraxella catarrhalis synthesizes an autotransporter that is an acid phosphatase. J. Bacteriol., 190, 1459-1472.

2007

Hegde, A., Haines, D.C., Bondlela, M., Chen, B., Schaffer, N., Tomchick, D.R., Machius, M., Nguyen, H., Chowdhary, P.K., Stewart, L, Lopez, C., and Peterson, J.A. (2007). Interactions of substrates at the surface of P450s can greatly enhance substrate potency. Biochemistry, 46, 14010-14017.

Yang, M., Li, B., Tomchick, D.R., Machius, M., Rizo, J., Yu, H., and Luo, X. (2007). p31(comet) blocks Mad2 activation through structural mimicry. Cell, 131, 744-755.

Guan, R., Dai, H., Tomchick, D.R., Dulubova, I., Machius, M., Sudhof, T.C., and Rizo, J. (2007). Crystal structure of the RIM1alpha domain at 1.7 A. Biochemistry, 46, 8988-8998.

Yang, M., Culhane, J.C., Szewczuk, L.M., Jalili, P., Ball, H.L., Machius, M., Cole, P.A., and Yu, H. (2007). Structural basis for the inhibition of the LSD1 histone demethylase by the antidepressant trans-2-phenylcyclopropylamine. Biochemistry, 46, 8058-8065.

Machius, M., Brautigam, C.A., Tomchick, D.R., Ward, P., Otwinowski, Z., Blevins, J.S., Deka, R.K., & Norgard, M.V. (2007). Structural and biochemical basis for polyamine binding to the Tp0655 lipoprotein of Treponema pallidum: putative role for Tp0655 (TpPotD) as a polyamine receptor. J. Mol. Biol., 373, 681-694.

Yang, M., Culhane, J.C., Szewczuk, L.M., Gocke, C.B., Brautigam, C.A., Tomchick, D.R., Machius, M., Cole, P.A., & Yu, H. (2007). Structural basis of histone demethylation by LSD1 revealed by suicide inactivation. Nat. Struct. Molec. Biol., 14, 535-539.

Li, J., Machius, M., Chuang, J.L., Wynn, R.M., and Chuang, D.T. (2007). The two active sites in human branched-chain alpha-keto acid dehydrogenase operate independently without an obligatory alternating-site mechanism. J. Biol. Chem., 282, 11904-11913.

Chosed, R., Tomchick, D.R., Brautigam, C.A., Mukherjee, S., Negi, V.S., Machius, M., and Orth, K. (2007). Structural analysis of Xanthomonas XopD provides insights into substrate specificity of ULPs. J. Biol. Chem., 282, 6773-6782.

Deka, R.K., Brautigam, C.A., Tomson, F.L., Machius, M., Tomchick, D.R., and Norgard, M.V. (2007). Crystal structure of the Tp34 (TP0971) lipoprotein of Treponema pallidum: biological implications of its metal-bound state and affinity for human lactoferrin. J. Biol. Chem., 282, 5944-5958.

2006

Yang, M., Gocke, C.B., Luo, X., Borek, D., Tomchick, D.R., Machius, M., Otwinowski, Z., and Yu, H. (2006). Structural basis for CoREST-dependent demethylation of nucleosomes by the human LSD1 histone demethylase. Mol. Cell, 23, 377-387.

Gilles-Gonzalez, M.-A., Caceres, A.I., Sousa, E.H.S., Tomchick, D.R., Brautigam, C., Gonzalez, C., and Machius, M. (2006). A proximal arginine R206 participates in switching of the Bradyrhizobium japonicum FixL oxygen sensor. J. Mol. Biol., 360, 80-89.

Lu, J., Machius, M., Dulubova, I., Dai, H., Sudhof, T.C., Tomchick, D.R., and Rizo, J. (2006). Structural basis for a Munc13-1 homodimer to Munc13-1/RIM heterodimer switch. PLoS Biol., 4, e192.

Machius, M., Wynn, R.M., Chuang, J.L., Li, J., Kluger, R., Yu, D., Tomchick, D.R., Brautigam, C.A., and Chuang, D.T. (2006). A versatile conformational switch regulates reactivity in human branched-chain a-ketoacid dehydrogenase. Structure, 14, 287-298.

Brautigam, C.A., Wynn, R.M., Chuang, J.L., Machius, M., Tomchick, D.R., and Chuang, D.T. (2006). Structural insight into interactions between dihydrolipoamide dehydrogenase (E3) and E3 binding protein of human pyruvate dehydrogenase complex. Structure, 14, 611-621.

Deka, R.K., Brautigam, C.A., Yang, X.F., Blevins, J.S., Machius, M., Tomchick, D.R., and Norgard, M.V. (2006). The PnrA (Tp0319; TmpC) lipoprotein represents a new family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC)-like operon in Treponema pallidum. J. Biol. Chem., 281, 8072-8081.

2005

Dai, H., Tomchick, D.R., Garcia, J., Sudhof, T.C., Machius, M., and Rizo, J. (2005). Crystal structure of the RIM2 C2A-domain at 1.4 A resolution. Biochemistry, 44, 13533-13542.

Brautigam, C.A., Chuang, J.L., Tomchick, D.R., Machius, M., and Chuang, D.T. (2005). Crystal structure of human dihydrolipoamide dehydrogenase: NAD+/NADH binding and the structural basis of disease-causing mutations. J. Mol. Biol., 350, 543-552.

Otomo, T., Otomo, C., Tomchick, D.R., Machius, M., and Rosen, M.K. (2005). Structural basis of Rho GTP-ase-mediated activation of the formin mDia1. Mol. Cell, 18, 273-281.

Otomo, T., Tomchick, D.R., Otomo, C., Panchal, S.C., Machius, M., and Rosen, M.K. (2005). Structural basis of actin filament nucleation and processive capping by a formin homology 2 domain. Nature, 433, 488-494.

Thibodeau, P.H., Brautigam, C.A., Machius, M., and Thomas, P.J. (2005). Side chain and backbone contributions of Phe508 to CFTR folding. Nat. Struct. Molec. Biol., 12, 10-16.

2004

Deka, R.K., Neil, L., Hagman, K.E., Machius, M., Tomchick, D.R., Brautigam, C.A., and Norgard, M.V. (2004). Structural evidence that the 32-Kilodalton lipoprotein (Tp32) of Treponema pallidum is a L-Methionine-binding protein. J. Biol. Chem., 279, 55644-55650.

Wynn, R.M., Kato, M., Machius, M., Chuang, J.L., Li, J., Tomchick, D.R., & Chuang, D.T. (2004). Molecular mechanism for regulation of the human mitochondrial branched-chain a-ketoacid dehydrogenase complex by phosphorylation. Structure, 12, 2185-2196.

Li, J., Wynn, R.M., Machius, M., Chuang, J.L., Karthikeyan, S., Tomchick, D.R. and Chuang, D.T. (2004). Cross-talk between Thiamin Diphosphate Binding and Phosphorylation Loop Conformation in Human Branched-chain a-Keto Acid Decarboxylase/Dehydrogenase. J. Biol. Chem., 279, 32968-32978.

Dai, H., Shin, O.-H., Machius, M., Tomchick, D.R., & Rizo, J. (2004). Structural Basis for the Evolutionary Inactivation of Ca2+ Binding to Synaptotagmin 4. Nat. Struct. Molec. Biol., 11, 844-849.

2003

Wynn, R.W., Machius, M., Chuang, J., Li, J., Tomchick, D.R., and Chuang, D.T. (2003). Roles of His291-a and His146-b' in the Reductive Acylation Reaction Catalyzed by Human Branched-chain a-Ketoacid Dehydrogenase. J. Biol. Chem., 278, 43402-43410.

Hu, X., Machius, M., and Yang, W. (2003). Monovalent Cation Dependence and Preference of GHKL ATPases and Kinases. FEBS Lett., 544, 268-273.

2002

Michaely, P., Tomchick, D.R., Machius, M., and Anderson, R.G.W. (2002). Crystal Structure of a 12 ANK Repeat Stack from Human AnkyrinR. EMBO J., 21, 6387-6396.

Deka, R.K., Machius, M., Norgard, M.V., and Tomchick, D.R. (2002). Crystal Structure of the 47-kDa Lipoprotein of Treponema pallidum Reveals a Novel Penicillin-binding Protein. J. Biol. Chem., 277, 41857-41862.

Chen, X., Tomchick, D.R., Kovrigin, E., Arac, D., Machius, M., Sudhof, T.C., and Rizo, J. (2002). Three-dimensional Structure of the Complexin/SNARE Complex. Neuron, 33, 397-409.

Zhou, T., Kurnasov, O., Tomchick, D.R., Binns, D.D., Grishin, N.V., Marquez, V.E., Osterman, A.L., and Zhang, H. (2002). Structure of Human Nicotinamide/Nicotinic Acid Mononucleotide Adenylyltransferase: Basis for the Dual Substrate Specificity and Activation of the Oncolytic Agent Tiazofurin. J. Biol. Chem., 277, 13148-13154.

2001

Haines, D.C., Tomchick, D.R., Machius, M., and Peterson, J.A. (2001). Pivotal Role of Water in the Mechanism of P450-BM3. Biochemistry, 40, 13456-13465.

Machius, M., Chuang, J.L., Wynn, R.W., Tomchick, D.R., and Chuang, D.T. (2001). Structure of Rat BCKD Kinase: Nucleotide-induced Domain Communication in a Mitochondrial Protein Kinase. Proc. Natl. Acad. Sci. USA, 98, 11218-11213.

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