List of Publications
List of Publications
2023
131. Breithaupt C, Gruber T, Mandel K, Lewitzky M, Meister A, Balbach J, Feller SM, Stubbs MT (2023) Self-assembly of Grb2 meshworks revealed by Grb2-Gab1497-528 complex structure. bioRxiv, doi.org/10.1101/2023.06.17.545433
130. Balbach J, Stubbs MT (2023) Coupling proteins, with deadly consequences. Science 381, 126-127. doi: 10.1126/science.adi7571.
2022
129. Prasad A, Breithaupt C, Nguyen DA, Lilie H, Ziegler J, Stubbs MT (2022) Mechanism of chorismate dehydratase MqnA, the first enzyme of the futalosine pathway, proceeds via substrate-assisted catalysis. J Biol Chem. 298, 102601. doi: 10.1016/j.jbc.2022.102601.
2021
128. Taudte N, Linnert M, Rahfeld JU, Piechotta A, Ramsbeck D, Buchholz M, Kolenko P, Parthier C, Houston JA, Veillard F, Eick S, Potempa J, Schilling S, Demuth HU, Stubbs MT (2021) Mammalian-like type II glutaminyl cyclases in Porphyromonas gingivalis and other oral pathogenic bacteria as targets for treatment of periodontitis. J Biol Chem. 296, 100263. doi: 10.1074/jbc.RA120.016836.
2020
127. Hamdi F, Tüting C, Semchonok DA, Visscher KM, Kyrilis FL, Meister A, Skalidis I, Schmidt L, Parthier C, Stubbs MT*, Kastritis PL (2020) 2.7 Å cryo-EM structure of vitrified M. musculus H-chain apoferritin from a compact 200 keV cryo-microscope. PLoS One 15:e0232540. doi: 10.1371/journal.pone.0232540.
2018
126. Nagarathinam K, Nakada-Nakura Y, Parthier C, Terada T, Juge N, Jaenecke F, Liu K, Hotta Y, Miyaji T, Omote H, Iwata S, Nomura N, Stubbs MT, Tanabe M (2018) Outward open conformation of a Major Facilitator Superfamily multidrug/H+ antiporter provides insights into switching mechanism. Nat Commun. 9, 4005. doi: 10.1038/s41467-018-06306-x .
2017
125. Cotrim CA, Weidner A, Strehmel N, Bisol TB, Meyer D, Brandt W, Wessjohann LA and Stubbs MT (2017) A distinct aromatic prenyltransferase associated with the futalosine pathway . ChemistrySelect 2, 9319-9325.
124. Nagarathinam K, Jaenecke F, Nakada-Nakura Y, Hotta Y, Liu K, Iwata S, Stubbs MT, Nomura N, Tanabe M (2017) The multidrug-resistance transporter MdfA from Escherichia coli: crystallization and X-ray diffraction analysis. Acta Crystallogr F Struct Biol Commun. 73, 423-430.
123. Piechotta A, Parthier C, Kleinschmidt M, Gnoth K, Pillot T, Lues I, Demuth HU, Schilling S, Rahfeld JU, Stubbs MT (2017) Structural and functional analyses of pyroglutamate-amyloid-β-specific antibodies as a basis for Alzheimer immunotherapy. J Biol Chem. 292, 12713-12724.
2015
122. Jaenecke F, Epler-Friedrich B, Parthier C and Stubbs MT (2015) Membrane composition influences the activity of in vitro refolded human vitamin K epoxide reductase . Biochemistry 54, 6454-6461.
121. Osadnik H, Schöpfel M, Heidrich E, Mehner D, Lilie H, Parthier C, Risselada HJ, Grubmüller H, Stubbs MT and Brüser T (2015) The PspF-binding domain PspA1-144 and the PspA·F complex - New insights into the coiled-coil dependent regulation of AAA+ proteins . Mol. Microbiol. 98, 743-759.
120. Zimmermann S, Pfennig S, Neumann P, Yonus H, Weininger U, Kovermann M, Balbach J and Stubbs MT (2015) High-resolution structures of the d-alanyl carrier protein (Dcp) DltC from Bacillus subtilis reveal equivalent conformations of apo- and holo-forms . FEBS Lett. 589, 2283-2289.
2014
119. Stubbs MT and Wahle E (2014) Deadenylation: a piece of PANcake. EMBO J. 33, 1503-1505.
118. Menzel A, Neumann P, Schwieger C and Stubbs MT (2014) Thermodynamic signatures in macromolecular interactions involving conformational flexibility. Biol. Chem. 395, 905-911.
117. Tziridis A, Rauh D, Neumann P, Kolenko P, Menzel A, Bräuer U, Ursel C, Steinmetzer P, Stürzebecher J, Schweinitz A, Steinmetzer T and Stubbs MT (2014) Correlating structure and ligand affinity in drug discovery: A cautionary tale involving second shell residues. Biol. Chem. 395, 891-903.
116. Stubbs MT (2014) Conformational transitions in macromolecular interactions. Biol. Chem. 395, 685-687.
115. Parthier C, Stelter M, Ursel C, Fandrich U, Lilie H, Breithaupt C and Stubbs MT (2014) Structure of the Toll-Spätzle complex, a molecular hub in Drosophila development and innate immunity. PNAS 111, 6281-6286.
114. Simon C, Klose T, Herbst S, Han BG, Sinz A, Glaeser RM, Stubbs MT and Lilie H (2014) Disulfide linkage and structure of highly stable yeast-derived virus-like particles of murine polyomavirus. J. Biol. Chem. 289, 10411-10418.
113. Liebscher S, Schöpfel M, Aumüller T, Sharkhuukhen A, Pech A, Höss E, Parthier C, Jahreis G, Stubbs MT* and Bordusa F* (2014) N-Terminal Protein Modification by Substrate-Activated Reverse Proteolysis. Angew Chem Int Ed Engl. 53, 3024-3028.
2013
112. Stelter M, Fandrich U, Franzke K, Schierhorn A, Breithaupt C, Parthier C and Stubbs MT (2013) High level expression of the Drosophila Toll receptor ectodomain and crystallization of its complex with the morphogen Spätzle. Biol Chem. 394, 1091-1096.
111. Ursel C, Fandrich U, Hoffmann A, Sieg T, Ihling C and Stubbs MT (2013) In-vitro maturation of Drosophila melanogaster Spätzle protein with refolded Easter reveals a novel cleavage site within the prodomain. Biol Chem. 394, 1069-1075.
110. Kolenko P, Koch B, Rahfeld JU, Schilling S, Demuth HU and Stubbs MT (2013) Crystal structure of the glutaminyl cyclase from Drosophila melanogaster in space group I4. Acta Cryst. F69, 358-361.
109. Funkner A, Parthier C, Schutkowski M, Zerweck J, Lilie H, Gyrych N, Fischer G, Stubbs MT and Ferrari DM (2013) Peptide Binding by Catalytic Domains of the Protein Disulfide Isomerase-Related Protein ERp46. J Mol Biol. 425, 1340-1362.
2012
108. Stubbs MT and Baumann U (2012) No end in sight: the development of protein crystallography in Martinsried. Biol Chem. 393, 1025-1026.
107. Koch B, Kolenko P, Buchholz M, Carrillo DR, Parthier C, Wermann M, Rahfeld JU, Reuter G, Schilling S, Stubbs MT and Demuth HU (2012) Crystal structures of glutaminyl cyclases (QCs) from Drosophila melanogaster reveal active site conservation between insect and mammalian QCs. Biochemistry 51, 7383-7392.
106. Morgado I, Wieligmann K, Bereza M, Rönicke R, Meinhardt K, Annamalai K, Baumann M, Wacker J, Hortschansky P, Malešević M, Parthier C, Mawrin C, Schiene-Fischer C, Reymann KG, Stubbs MT, Balbach J, Görlach M, Horn U and Fändrich M (2012) Molecular basis of β-amyloid oligomer recognition with a conformational antibody fragment. PNAS 109, 12503-12508.
105. Löw C, Haupt C, Stubbs MT and Balbach J (2012) Metallochaperone SlyD. In Encyclopedia of Inorganic and Bioinorganic Chemistry (R. Huber, T. Poulos, K. Wieghardt and A. Messerschmidt, eds.), John Wiley and Sons, in press.
104. Han BG, Walton RW, Song A, Hwu P, Stubbs MT, Yannone SM, Arbelaez P, Dong M, Glaeser RM. (2012) Electron microscopy of biotinylated protein complexes bound to streptavidin monolayer crystals. J Struct Biol 180, 249-253.
103. Parthier C, Görlich S, Jaenecke F, Breithaupt C, Bräuer U, Fandrich U, Clausnitzer D, Wehmeier UF, Böttcher C, Scheel D, Stubbs MT (2012) The O-Carbamoyltransferase TobZ Catalyzes an Ancient Enzymatic Reaction. Angew Chem Int Ed Engl. 51, 4046-4052.
102. Pfennig S and Stubbs MT (2012) Flexing and stretching in nonribosomal Peptide synthetases. Chem. Biol. 19, 167-169.
2011
101. Ruiz-Carrillo D, Koch B, Parthier C, Wermann M, Dambe T, Buchholz M, Ludwig HH, Heiser U, Rahfeld JU, Stubbs MT*, Schilling S and Demuth HU (2011) Structures of Glycosylated Mammalian Glutaminyl Cyclases Reveal Conformational Variability near the Active Center. Biochemistry 50, 6280-6288.
100. Parthier C and Stubbs MT (2011) Peptide Hormone Recognition in Class B GPCRs: Role of the Extracellular Domain in Receptor Activation. In G Protein-Coupled Receptors: From Structure to Function (J. Giraldo and J.-P. Pin, eds.), Royal Society of Chemistry (Cambridge), pp. 75-89.
99. Schöpfel M, Tziridis A, Arnold U and Stubbs MT (2011) Towards a restriction proteinase: construction of a self-activating enzyme. Chembiochem 12, 1523-1527.
98. Maestre-Martínez M, Haupt K, Edlich F, Neumann P, Parthier C, Stubbs MT, Fischer G and Lücke C (2011) A charge-sensitive loop in the FKBP38 catalytic domain modulates Bcl-2 binding. J Mol Recognit. 24, 23-34.
97. Haupt C, Morgado I, Kumar ST, Parthier C, Bereza M, Hortschansky P, Stubbs MT, Horn U and Fändrich M (2011) Amyloid fibril recognition with the conformational B10 antibody fragment depends on electrostatic interactions. J Mol Biol. 405, 341-348.
2010
96. Carrillo DR, Parthier C, Jänckel N, Grandke J, Stelter M, Schilling S, Boehme M, Neumann P, Wolf R, Demuth HU, Stubbs MT* and Rahfeld JU (2010) Kinetic and structural characterization of bacterial glutaminyl cyclases from Zymomonas mobilis and Myxococcus xanthus. Biol Chem. 391, 1419-1428.
95. Schulenburg, C., Weininger, U., Neumann, P., Meiselbach, H., Stubbs, M.T., Sticht, H., Balbach, J., Ulbrich-Hofmann, R. and Arnold, U. (2010) Impact of the C‑terminal disulfide bond on the folding and stability of onconase. ChemBioChem, 11, 976-986
94. Löw, C., Neumann, P., Tidow, H., Weininger, U., Haupt, C., Friedrich-Epler, B., Scholz, C., Stubbs, M.T.* and Balbach, J. (2010) Crystal structure determination and functional characterization of the metallochaperone SlyD from Thermus thermophilus. J. Mol. Biol. 398, 375-390.
2009
93. Weininger, U., Zeeb, M., Neumann, P., Löw, C., Stubbs, M.T., Lipps, G. and Balbach, J. (2009) Structure-based stability analysis of an extremely stable dimeric DNA binding protein from Sulfolobus islandicus. Biochemistry 48, 10030-10037
92. Stehle, F., Brandt, W., Stubbs, M.T., Milkowski, C. and Strack, D. (2009) Sinapoyltransferases in the light of molecular evolution. Phytochemistry 70, 1652-1662
91. Parthier, C., Runge, S., Rudolph, R. and Stubbs, M.T. (2009) Passing the baton in class B GPCRs: peptide hormone activation via helix induction? TiBS 34, 303-310
90. Neumann, P., Lieber, D., Meyer, S., Dautel, P., Kerth, A., Kraus, I., Garten, W. and Stubbs, M.T. (2009) Crystal structure of the Borna disease virus matrix protein (BDV-M) reveals single-stranded RNA binding properties. PNAS 106, 3710-3715
89. Barak, N.N., Neumann, P., Sevanna, M., Schutkowski, M., Naumann, K., Malesevic, M., Reichardt, H., Fischer, G., Stubbs, M.T., and Ferrari, D.M. (2009) Crystal structure and functional analysis of the protein disulfide isomerase related chaperone ERp29. J. Mol. Biol.385, 1630-1642
2008
88. Neumann, P., Weidner, A., Pech, A., Stubbs, M.T.* and Tittmann, K. (2008) Structural basis for membrane binding and catalytic activation of the peripheral membrane enzyme pyruvate oxidase from Escherichia coli. PNAS 105, 17390-17395.
87. Hoffmann, A., Funkner, A., Neumann, P., Juhnke, S., Walther, M., Weininger, U., Schierhorn, A., Balbach, J., Reuter, G. and Stubbs, M.T. (2008) Biophysical characterisation of refolded Drosophila Spätzle, a cystine knot protein, reveals distinct properties of three isoforms. J. Biol. Chem. 283, 32598-32609.
86. Yonus, H., Neumann, P., Zimmermann, S., May, J.J., Marahiel, M.A. and Stubbs, M.T. (2008) Crystal structure of DltA: Implications for the reaction mechanism of non-ribosomal peptide synthetase (NRPS) adenylation domains. J. Biol. Chem. 283, 32484-32491.
85. Hoffmann, A., Neumann, P., Schierhorn, A. and Stubbs, M.T. (2008) Crystallisation of Spätzle, a cystine-knot protein involved in embryonic development and innate immunity in Drosophila melanogaster. Acta Cryst. F64, 707-710.
84. Kopycki, J.G., Stubbs, M.T., Hagemann, M., Porzel, A., Schmidt, J., Schliemann, W., Zenk, M.H. and Vogt, T. (2008) Functional characterization and structural properties of a cation dependent O-methyltransferase from the cyanabacterium Synechocystis sp. Strain PCC 6803. J. Biol. Chem. 283, 20888-20896.
83. Kopycki, J.G., Rauh, D., Chumanevich, A.A., Neumann, P., Vogt, T. and Stubbs, M.T. (2008) Biochemical and structural analysis of substrate specific and promiscuous Mg2+-dependent O-methyltransferases. J. Mol. Biol. 378, 154-164.
82. Weidner, A., Neumann, P., Wille, G., Stubbs, M.T. and Tittmann, K. (2008) Crystallization and preliminary X-ray diffraction analysis of full-length and proteolytically activated pyruvate oxidase from Escherichia coli. Acta Cryst. F64, 179-181.
81. Löw, C., Weininger, U., Neumann, P., Lilie, H., Stubbs, M.T. and Balbach, J. (2008) Structural insights into an equilibrium folding intermediate of an archael ankyrin repeat protein. PNAS 105, 3779-3784.
80. Stehle, F., Stubbs, M.T., Strack, D. and Milkowski, C. (2008) Heterologous expression of a serine carboxypeptidase-like acyltransferase and characterization of the kinetic mechanism. FEBS J. 275, 775-787.
2007
79. Parthier, C., Kleinschmidt, M., Neumann, P., Rudolph, R., Manhart, S., Schlenzig, D., Fanghänel, J., Rahfeld, J.-U., Demuth, H.-U. and Stubbs, M.T. (2007) Crystal structure of the incretin-bound extracellular domain of a G-protein coupled receptor. PNAS 104, 13942-13947.
78. Ebersbach, H., Fiedler, E., Scheuermann, T., Fiedler, M., Stubbs, M.T., Reimann, C., Proetzel, G., Rudolph, R. and Fiedler, U. (2007) AffilinTM – novel binding molecules based on γ-crystallin, an all β-sheet protein}. J. Mol. Biol. 372, 172-185.
77. Linne, U., Schäfer, A., Stubbs, M.T. and Marahiel, M.A. (2007) Aminoacyl-coenzyme A synthesis catalyzed by adenylation domains. FEBS Lett. 581, 905-910.
2006
76. Stubbs, M.T. (2006) Protein ligand interactions studied by X-ray. In Encyclopedic reference of genomics and proteomics in molecular medicine (D. Ganten & K. Ruckpaul, eds.), Springer Verlag (Heidelberg).
75. Stubbs, M.T. (2006) Protein crystallography. Chapter 3.21, Comprehensive Medicinal Chemistry II (D.J. Triggle and J.B. Taylor, eds.) Elsevier (Oxford), 449-472.
74. Bodtke, A., Stubbs, M.T. and Otto, H.-H. (2006) Azasteroids. Reaction of chiral N,N-maleoyl amino acids with 1-(1-trimethylsiloxyvinyl)-3,4-dihydronaphthlene. Monatshefte für Chemie 137, 83-103.
2005
73. Werner, C., Stubbs, M.T. , Krauth-Siegel, R.L. and Klebe, G. (2005) The Crystal Structure of Plasmodium falciparum Glutamate Dehydrogenase, a Putative Target for Novel Antimalarial Drugs. J. Mol. Biol. 349, 597-607
2004
72. Brenk, R., Meyer, E.A., Reuter, K., Stubbs, M.T. , Garcia, G.A., Diederich, F. and Klebe, G. (2004) Crystallographic study of inhibitors of tRNA-guanine transglycosylase suggests a new structure-based pharmacophore for virtual screening. J. Mol. Biol. 338, 55-75
71. Rauh, D., Klebe, G. and Stubbs, M.T. (2004) Understanding protein-ligand interactions: The price of protein flexibility. J. Mol. Biol. 335, 1325-1341
2003
70. Brenk, R., Stubbs, M.T., Heine, A., Reuter, K. and Klebe, G. (2003) Flexible adaptations in the structure of the tRNA-modifying enzyme tRNA-guanine transglycosylase and their implications for substrate selectivity, reaction mechanism and structure-based drug design. Chem.Bio.Chem. 4, 1066-1077
69. Bocola, M., Stubbs, M.T., Sotriffer, C., Hauer, B., Friedrich, T., Dittrich, K. and Klebe, G. (2003) Structural and energetic determinants for enantiopreferences in kinetic resolution of lipases. Protein Eng. 16, 319-322
68. Rauh, D., Klebe, G., Stürzebecher, J. and Stubbs, M.T. (2003) ZZ made EZ: Influence of inhibitor configuration on enzyme selectivity. J. Mol. Biol. 330, 761-770
67. Schmitt, L., Benabdelhak, H., Blight, M.A., Holland, I.B. and Stubbs, M.T. (2003) Crystal structure of the NBD of the ABC-transporter HlyB: Identification of a variable region within ABC helical domains. J. Mol. Biol. 330, 333-342
66. Stubbs, M.T. and Klebe, G. (2003) Das Nadelöhr - Von der Forschung zur Entwicklung. Kapitel 2.1, Die pharmazeutische Industrie (D. Fischer und J. Breitenbach, Hrsg.) Spektrum Akademischer Verlag, Heidelberg, 35-61
65. Brenk, R., Naerum, L., Gradler, U., Gerber, H.-D., Garcia, G.A., Reuter, K., Stubbs, M.T. and Klebe, G. (2003) Virtual screening for submicromolar leads of tRNA-guanine transglycosylase based on a new unexpected binding mode detected by crystal structure analysis. J. Med. Chem. 46, 1133-1143
64. Bergemann, S., Brecht, R., Buttner, F., Guenard, D., Gust, R., Seitz, G., Stubbs, M.T. and Thoret, S. (2003) Novel B-ring Modified Allocolchicinoids of the NCME-Series: Design, Synthesis, Antimicrotubule Activity and Cytotoxicity. Bioorg. Med. Chem. 11, 1269-1281
63. Reyda, S., Sohn, C., Klebe, G., Rall, K., Ullmann, D., Jakubke, H.-D. and Stubbs, M.T. (2003) Reconstructing the binding site of factor Xa in trypsin reveals ligand-induced structural plasticity. J. Mol. Biol. 325, 963-977
2002
62. Stubbs, M.T. (2002) Anthrax X-rayed: New opportunities for biodefence. Trends Pharm. Sci. 23, 539-541
61. May, J.J., Keßler, N., Marahiel, M.A. and Stubbs, M.T. (2002) Crystal structure of DhbE, an archetype for carboxy acid activating domains of modular nonribosomal peptide synthetases. Proc. Natl. Acad. Sci. USA 99, 12120-12125
60. Rauh, D., Reyda, S., Klebe, G. and Stubbs, M.T. (2002) Trypsin mutants for structure based drug design: expression, refolding and crystallisation. Biol. Chem. 383, 1309-1314
59. Grüneberg, S., Stubbs, M.T. and Klebe, G. (2002) Successful virtual screening for novel inhibitors of human carbonic anhydrase: Strategy and experimental confirmation. J. Med. Chem. 45, 3588-3602.
58. Abbate, F., Supuran, C.T., Scozzafava, A., Orioli, P., Stubbs, M.T., and Klebe, G. (2002) Nonaromatic sulfonamide group as an ideal anchor for potent human carbonic anhydrase inhibitors: Role of hydrogen-bonding networks in ligand binding and drug design. J. Med. Chem. 45, 3583-3587.
57. Kraus, I., Scheffczik, H., Eickmann, M., Kiermayer, S., Stubbs, M.T., and Garten, W. (2002) Crystallization and preliminary X-ray analysis of the matrix protein of Borna disease virus. Acta Cryst. D58, 1371-1373.
56. Reuter, K., Sanderbrand, S., Jomaa, H., Wiesner, J., Steinbrecher, I., Beck, E., Hintz, M., Klebe, G. and Stubbs, M.T. (2002) Crystal structure of 1-deoxy-D-xylulose-5-phosphate reductoisomerase, a crucial enzyme in the non-mevalonate pathway of isoprenoid biosynthesis. J. Biol. Chem.277, 5378-5384.
55. Bruner, S., Weber, T., Kohli, R.M., Schwarzer, D., Marahiel, M.A., Walsh, C.T. and Stubbs, M.T. (2002) Structural basis for peptide cyclisation by surfactin synthetase thioesterase SrfTE. Structure 10, 301-310.
54. Stubbs, M.T., Reyda, S., Dullweber, F., Möller, M., Klebe, G., Dorsch, D., Mederski, W.W.K.R. and Wurziger, H. (2002) pH-dependent binding modes observed in trypsin crystals - Lessons for structure-based drug design. Chem.Bio.Chem.3, 246-249.
2001
53. Dullweber, F., Stubbs, M.T.*, Musil, D., Stürzebecher, J. and Klebe, G.* (2001) Factorising ligand affinity: A combined thermodynamic and crystallographic study of trypsin and thrombin inhibition. J. Mol. Biol. 313, 593-614.
52. Kamm, W., Hauptmann, J., Behrens, I., Stürzebecher, J., Dullweber, F., Gohlke, H., Stubbs, M., Klebe, G. and Kissel, T. (2001) Transport of peptidomimetic thrombin inhibitors with a 3-amino-phenylalanine structure: permeability and efflux mechanism in monolayers of a human intestinal cell line (Caco-2). Pharm. Res. 18, 1110-1118.
51. Gündisch, D., Harms, K., Schwarz, S., Seitz, G., Stubbs, M.T. and Wegge, T. (2001) Synthesis and Evaluation of Diazine Containing Bioisosteres of (-)-Ferruginine as Ligands for Nicotinic Acetylcholine Receptors. Bioorg. Med. Chem. 9, 2683-2691.
50. Imming, P., Klaperski, P., Stubbs, M.T., Seitz, G. and Gündisch, D. (2001) Syntheses and Evaluation of Halogenated Cytisine Derivatives and of the Biosteric Thiocystine as Potent and Selective nAChR-Ligands. Eur. J. Med. Chem. 36, 375-388.
49. Stubbs, M.T. and Huber, R. (2001) Locating heavy atom sites. Chapter 12.2, International Tables for Crystallography, Volume F: Crystallography of Biological Macromolecules (M.G. Rossmann and E. Arnold, eds.) Kluwer Academic Publishers, Dordrecht, The Netherlands, 256-262.
48. Grädler, U., Gerber, H.-D., Goodenough-Lashua, D.M., Garcia, G.A., Ficner, R., Reuter, K., Stubbs, M.T. and Klebe, G. (2001) A new Target for Shigellosis: Rational Design and Crystallographic Studies of Inhibitors of tRNA-Guanine Transglycosylase. J. Mol. Biol. 306, 455-467.
47. García Díaz, B., Groß, S., Assfalg-Machleidt, I., Pfeiler, D., Gollmitzer, N., Gabrijelcic-Geiger, D., Stubbs, M.T., Fritz, H., Auerswald, E.A. and Machleidt, W. (2001) Cystatins as calpain inhibitors: Engineered chicken cystatin- and stefin B-kininogen domain 2 hybrids support a cystatin-like mode of interaction with the catalytic subunit of µ-calpain. Biol. Chem. 382, 97-107.
46. Che, D., Wegge, T., Stubbs, M.T., Seitz, G., Meier, H. and Methfessel, C. (2001) 2-(Pyridazin-4-yl)-7-azabicyclo[2.2.1]heptanes: Design, syntheses and biological characterization of potent pyridazine analogues of (±)-Epibatidine. J. Med. Chem. 44, 47-57.
2000
45. Bode, W., Brandstetter, H., Hopfner, K.P. and Stubbs, M.T. (2000) Three-dimensional structures of coagulation factors: pieces of a complicated puzzle. In New Frontier in Vascular Biology; Thrombosis and Hemostasis (K. Suzuki, Y. Ikeda, and I. Maruyama, eds.) Eibun Press, Ltd., Osaka, 75-92.
1999
44. Macedo-Ribeiro, S., Bode, W., Huber, R., Quinn-Allen, M.A., Kim, S.W., Ortel, T.L., Bourenkov, G.P., Bartunik, H.D., Stubbs, M.T., Kane, W.H. and Fuentes-Prior, P. (1999) Crystal Structures of the C2 Domain of Human Coagulation Factor V: Implications for Ca2+-Independent Membrane Binding. Nature 402, 434-439.
43. Stürzebecher, J., Vieweg, H., Steinmetzer, T., Schweinitz, A., Stubbs, M.T., Renatus, M. and Wikström, P. (1999) 3-Amidinophenylalanine- based inhibitors of urokinase. Bioorg. Med. Chem. Lett. 9, 3147-3152.
42. Sommerhoff, C.P., Bode, W., Pereira, P.J.B., Stubbs, M.T., Piechottka, G., Matschiner, G. and Bergner, A. (1999) The structure of human bII-tryptase: Fo(u)r better or worse. Proc. Natl. Acad. Sci. USA 96, 10984-10991.
41. Grädler, U., Ficner, R., Garcia, G.A., Stubbs, M.T., Klebe, G. and Reuter, K. (1999). Mutagenesis and crystallographic studies of Zymomonas mobilis tRNA-guanine transgycosylase to elucidate the role of serine 103 for enzymatic activity. FEBS Lett. 454, 142-146.
40. Stubbs, M.T. and Bauer, M.M.T. (1999) Crystallization conditions for proteinases. In Proteolytic Enzymes (E. Sterchi and W. Stoecker, eds.), Heidelberg, Springer Lab Manual, 337-368.
39. Bauer, M.M.T. and Stubbs, M.T. (1999) Crystallization of proteinases. In Proteolytic Enzymes (E. Sterchi and W. Stoecker, eds.), Heidelberg, Springer Lab Manual, 128-151.
38. Bode, W. and Stubbs, M.T. (1999). Struktur und Funktion des Thrombins in Hämostaseologie. (G. Müller-Berghaus and B. Pötzsch, eds.), Heidelberg, Springer Verlag, 269-284.
1998
37. Renatus, M., Bode, W., Huber, R., Stürzebecher, J. and Stubbs, M.T. (1998) Structural and functional analyses of benzamidine-based inhibitors in complex with trypsin: Implications for the inhibition of factor Xa, tPA and urokinase. J. Med. Chem.41, 5445-5456.
36. Gabriel, B., Stubbs, M.T., Bergner, A., Hauptmann, J., Bode, W., Stürzebecher, J. and Moroder, L. (1998) Structure-based design of benzamidine-type inhibitors of Factor Xa. J. Med. Chem. 41, 4240-4250.
35. Becker. M., Stubbs, M.T., and Huber, R. (1998) Crystallization of phycoerythrin 545 of Rhodomonas lens using detergents and unusual additives. Protein Sci. 7, 580-586.
34. Stubbs, M.T., Renatus, M., and Bode, W. (1998) An active zymogen: Unravelling the mystery of tissue-type plasminogen activator.Biological Chemistry 379, 95-103
1997
33. Renatus, M., Engh, R.A., Stubbs, M.T., Huber, R., Fischer, S., Kohnert, U. and Bode, W. (1997) Lys156 promotes the anomalous proenzyme activity of t-PA: X-ray crystal structure of single chain human tPA, EMBO J. 16, 4797-4805.
32. Renatus, M., Stubbs, M.T., Huber, R., Bringmann, P., Donner, P., Schleuning, W.-D., and Bode, W. (1997) Catalytic domain structure of vampire bat plasminogen activator: A molecular paradigm for proteolysis without activation cleavage, Biochemistry 36, 13483-13493.
31. Renatus, M., Bode, W., Huber, R., Stürzebecher, J., Prasa, D., Fischer, S., Kohnert, U. and Stubbs, M.T.(1997) Structural mapping of the active site specificity determinants of human t-PA: Implications for the design of low molecular weight substrates and inhibitors, J. Biol. Chem. 272, 21713-21719.
30. Morenweiser, R., Auerswald, E.A., van deLocht, A., Fritz, H., Stürzebecher, J. and Stubbs, M.T. (1997) Structure-based design of a potent chimeric thrombin inhibitor, J. Biol. Chem. 272, 19938-19942.
29. Stubbs, M.T., Morenweiser, R., Stürzebecher, J., Bauer, M., Bode, W., Huber, R., Piechottka, G.P., Matschiner, G., Sommerhoff, C.P., Fritz, H. and Auerswald, E.A. (1997) The three dimensional structure of recombinant leech-derived tryptase inhibitor in complex with trypsin: Implications for the structure and function of human mast cell tryptase and its inhibition, J. Biol. Chem. 272, 19931-19937.
28. Bode, W., Brandstetter, H., Mather, T., and Stubbs, M.T. (1997) Comparative analysis of haemostatic proteinases: Structural aspects of thrombin, factor Xa, factor IXa and protein C, Thromb. Haemost. 78, 501-511.
27. Stubbs, M.T., and Bode, W. (1997) Beziehung zwischen Raumstruktur und Funktion des Thrombins. In Blutgerinnung und Blutungskomplikation (F.R. Matthias, ed.), Schattauer Verlag, 197-227.
26. Burgering, M.J.M., Orbons, L.P.M., van der Doelen, A., Mulders, J., Theunissen, H.J.M., Grootenhuis, P.D.J., Bode, W., Huber, R. and Stubbs, M.T. (1997) The second Kunitz domain of human tissue factor pathway inhibitor. Cloning, structure determination and interaction with factor Xa, J. Mol. Biol. 269, 395-407.
25. van de Locht, A., Bode, W., Huber, R., Le Bonniec, B.F., Stone, S.R., Esmon, C.T. and Stubbs, M.T. (1997) The thrombin E192Q:BPTI-complex reveals gross structural rearrangements: implications for the interaction with antithrombin and thrombomodulin, EMBO J. 16, 2977-2984.
1996
24. van deLocht, A., Stubbs, M.T., Bode, W., Friedrich, T., Bollschweiler, C., Hoeffken, W. and Huber, R. (1996) The Ornithodorin:Thrombin Crystal Structure, a Key to the TAP Enigma?, EMBO J. 15, 6011-6017.
23. Stubbs, M.T.(1996) Structural Aspects of Factor Xa Inhibition, Current Pharmaceutical Design 2, 543-552.
22. van deLocht, A., Stubbs, M.T., Bauer, M., and Bode, W. (1996) Conformation of the thrombin A-chain: Crystallographic evidence that the F2 kringle catalytic domain linker of prothrombin does not cover the fibrinogen recognition exosite, J. Biol. Chem.271, 3413-3416.
21. Auerswald, E.A., Nägler, D.K., Assfalg-Machleidt, I., Stubbs, M.T., Machleidt, W., and Fritz, H. (1996) Hybrids of chicken cystatin with human kininogen 2 sequences exhibit novel inhibition of calpain, improved inhibition of actinidin and impaired inhibition of papain, cathepsin L and cathepsin B, Eur. J. Biochem. 235, 534-542.
20. Stubbs, M.T., Nar, H., Löwe, J., Huber, R., Ladenstein, R., Spangfort, M.D., and Svensson, L.A. (1996) Locating a local symmetry axis from Patterson map cross vectors: application to crystal data from GroEL, GTP cyclohydrolase I and the proteosome, Acta Cryst. D52, 447-452.
1995
19. Stubbs, M.T., Huber, R., and Bode, W. (1995) Crystal structures of factor Xa specific inhibitors in complex with trypsin: Structural grounds for inhibition of factor Xa and selectivity against thrombin, FEBS Letts. 375, 103-107.
18. Stubbs, M.T., and Bode, W. (1995) Structure and specificity in coagulation and its inhibition, Trends in Cardiovascular Medicine 5, 157-166.
17. Bode, W., and Stubbs, M.T. (1995) Die Raumstruktur des Thrombin: ein Wegweiser zu seinen vielfältigen Funktionen, Hämostaseologie 15, 1-13.
16. Machleidt, W., Nägler, D.K., Assfalg-Machleidt, I., Stubbs, M.T., Fritz, H., and Auerswald, E.A. (1995) Temporary inhibition of papain by hairpin mutants of chicken cystatin: distorted binding of the loops results in cleavage of the Gly9-Ala10 bond, FEBS Letts. 361,185-190.
15. Auerswald, E.A., Nägler, D.K., Stubbs, M.T., Assfalg-Machleidt, I., Machleidt, W., and Fritz, H. (1995) Hairpin loop mutations of chicken cystatin have different effects on the inhibition of cathepsin B, cathepsin L and papain, FEBS Letts. 361,179-184.
14. Stubbs, M.T., and Bode, W. (1995) The clot thickens... clues provided by thrombin structure, Trends in Biochemical Sciences 20, 23-28.
1994
13. Stubbs, M.T., and Bode, W. (1994) Coagulation factors and their inhibitors, Current Opinion in Structural Biology 4, 823-832.
12. Stubbs, M.T., and Bode, W. (1994) The structural basis for thrombin inhibition by hirudin and serpins, in Thrombin: its key role in thrombogenesis: implications for its inhibition clinically (M.R. Buchanan, S.J. Brister and F. Ofosu, eds.), CRC Press, 19-51.
1993
11. Stubbs, M.T., and Bode, W. (1993) Crystal structures of thrombin and thrombin complexes as a framework for antithrombotic drug design, Perspectives in Drug Discovery and Design 1, 431-452.
10. Bode, W., and Stubbs, M.T. (1993) Crystal structures of thrombin as signposts to its multiple functions, Actual. Chim. Ther. 21, 3-22.
9. Stubbs, M.T., and Bode, W. (1993) A model for the specificity of fibrinogen cleavage by thrombin, Sem. Throm. Hemost. 19, 344-351.
8. Bode, W., and Stubbs, M.T. (1993) The spatial structure of thrombin as a guide to its multiple sites of interaction, Sem. Throm. Hemost. 19, 321-333.
7. Stubbs, M.T., and Bode, W. (1993) A player of many parts: the spotlight falls on thrombin's structure, Thromb. Res. 69, 1-58.
1992
6. Stubbs, M.T., Oschkinat, H., Mayr, I., Huber, R., Angliker, H., Stone, S.R., and Bode, W. (1992) The interaction of thrombin with fibrinogen - a structural basis for its specificity, Eur. J. Biochem. 206, 187-195.
1991
5. Stubbs, M.T., Miller, A., Sizer, P.J.H., Stephenson, J.R., and Crooks, A.J. (1991) X-ray solution scattering of Sindbis virus: changes in conformation induced at low pH, J. Mol. Biol. 221, 39-42.
4. Stubbs, M.T., and Huber, R. (1991) An analytical packing function employing Fourier transforms, Acta Cryst. A47, 521-526.
1990
3. Bode, W., Engh, R., Musil, D., Laber, B., Stubbs, M., Huber, R., and Turk, V. (1990) Mechanism of interaction of cysteine proteinases and their protein inhibitors as compared to the serine proteinase-inhibitor interaction, Biol. Chem. Hoppe-Seyler (Suppl.) 371, 111-118.
2. Stubbs, M.T., Laber, B., Bode, W., Huber, R., Jerala, R., Lenarcic, B., and Turk, V. (1990) The refined 2.4 Å X-ray crystal structure of recombinant human stefin B in complex with the cysteine proteinase papain: a novel type of proteinase inhibitor interaction, EMBO J. 9, 1939-1947.
1. Stubbs, M.T., Summers, L., Mayr, I., Schneider, M., Bode, W., Huber, R., Ries, A., and Kühn, K. (1990) Crystals of the NC1 domain of type IV collagen, J. Mol. Biol. 211, 683-684.