Rudolf Ladenstein

Summary

Affiliation: Karolinska Institutet
Country: Sweden

Publications

  1. pmc Expression, purification, crystallization and preliminary X-ray analysis of a nucleoside kinase from the hyperthermophile Methanocaldococcus jannaschii
    Linda Arnfors
    Center for Structural Biochemistry, Department of Biosciences at Novum, Karolinska Institute, S 141 57 Huddinge, Sweden
    Acta Crystallogr Sect F Struct Biol Cryst Commun 61:591-4. 2005
  2. ncbi request reprint Protein disulfides and protein disulfide oxidoreductases in hyperthermophiles
    Rudolf Ladenstein
    Karolinska Institutet NOVUM, Center of Structural Biochemistry, Huddinge, Sweden
    FEBS J 273:4170-85. 2006
  3. ncbi request reprint Reconsideration of an early dogma, saying "there is no evidence for disulfide bonds in proteins from archaea"
    Rudolf Ladenstein
    Center of Structural Biochemistry, Karolinska Institutet NOVUM, 14157 Huddinge, Sweden
    Extremophiles 12:29-38. 2008
  4. pmc Structural study and thermodynamic characterization of inhibitor binding to lumazine synthase from Bacillus anthracis
    Ekaterina Morgunova
    Karolinska Institutet NOVUM, Center of Structural Biochemistry, Huddinge, Sweden
    Acta Crystallogr D Biol Crystallogr 66:1001-11. 2010
  5. pmc Structure and function of a novel endonuclease acting on branched DNA substrates
    Bin Ren
    Center for Structural Biochemistry, Karolinska Institutet, Novum, Huddinge, Sweden
    EMBO J 28:2479-89. 2009
  6. pmc Structural analysis of the Sulfolobus solfataricus MCM protein N-terminal domain
    Wei Liu
    Center of Structural Biochemistry, Karolinska Institutet NOVUM, 141 57 Huddinge, Sweden
    Nucleic Acids Res 36:3235-43. 2008
  7. doi request reprint The lumazine synthase/riboflavin synthase complex: shapes and functions of a highly variable enzyme system
    Rudolf Ladenstein
    Department of Bioscience and Nutrition, Karolinska Institutet NOVUM, SE 14183 Huddinge, Sweden
    FEBS J 280:2537-63. 2013
  8. ncbi request reprint Structural and thermodynamic insights into the binding mode of five novel inhibitors of lumazine synthase from Mycobacterium tuberculosis
    Ekaterina Morgunova
    Karolinska Institutet, Novum, Centre for Structural Biochemistry, Huddinge, Sweden
    FEBS J 273:4790-804. 2006
  9. ncbi request reprint Crystal structure of the archaeal heat shock regulator from Pyrococcus furiosus: a molecular chimera representing eukaryal and bacterial features
    Wei Liu
    Karolinska Institutet NOVUM, Center for Structural Biochemistry, 141 57 Huddinge, Sweden
    J Mol Biol 369:474-88. 2007
  10. ncbi request reprint Structural and thermodynamic studies on a salt-bridge triad in the NADP-binding domain of glutamate dehydrogenase from Thermotoga maritima: cooperativity and electrostatic contribution to stability
    Joyce H G Lebbink
    Center for Structural Biochemistry, Department of Biosciences at Novum, Karolinska Institutet, 14157 Huddinge, Sweden
    Biochemistry 41:15524-35. 2002

Collaborators

Detail Information

Publications39

  1. pmc Expression, purification, crystallization and preliminary X-ray analysis of a nucleoside kinase from the hyperthermophile Methanocaldococcus jannaschii
    Linda Arnfors
    Center for Structural Biochemistry, Department of Biosciences at Novum, Karolinska Institute, S 141 57 Huddinge, Sweden
    Acta Crystallogr Sect F Struct Biol Cryst Commun 61:591-4. 2005
    ..70 A for the apoenzyme crystals and 1.93 A for the complex crystals. All crystals exhibit orthorhombic symmetry; however, the apoenzyme crystals contain one monomer per asymmetric unit whereas the complex crystals contain a dimer...
  2. ncbi request reprint Protein disulfides and protein disulfide oxidoreductases in hyperthermophiles
    Rudolf Ladenstein
    Karolinska Institutet NOVUM, Center of Structural Biochemistry, Huddinge, Sweden
    FEBS J 273:4170-85. 2006
    ..Numerous questions related to the function of PDO enzymes in hyperthermophiles remain unanswered to date, but can probably successfully be studied by a number of approaches, such as first-line genetic and in vivo studies...
  3. ncbi request reprint Reconsideration of an early dogma, saying "there is no evidence for disulfide bonds in proteins from archaea"
    Rudolf Ladenstein
    Center of Structural Biochemistry, Karolinska Institutet NOVUM, 14157 Huddinge, Sweden
    Extremophiles 12:29-38. 2008
    ..It is assumed, that PDO enzymes in hyperthermophilic archaea and bacteria may be part of a complex system involved in the maintenance of protein disulfide bonds...
  4. pmc Structural study and thermodynamic characterization of inhibitor binding to lumazine synthase from Bacillus anthracis
    Ekaterina Morgunova
    Karolinska Institutet NOVUM, Center of Structural Biochemistry, Huddinge, Sweden
    Acta Crystallogr D Biol Crystallogr 66:1001-11. 2010
    ..The results provide a structural framework for the design of antibiotics active against B. anthracis...
  5. pmc Structure and function of a novel endonuclease acting on branched DNA substrates
    Bin Ren
    Center for Structural Biochemistry, Karolinska Institutet, Novum, Huddinge, Sweden
    EMBO J 28:2479-89. 2009
    ..Altogether, our data suggest that NucS proteins constitute a new family of structure-specific DNA endonucleases that are widely distributed in archaea and in bacteria, including Mycobacterium tuberculosis...
  6. pmc Structural analysis of the Sulfolobus solfataricus MCM protein N-terminal domain
    Wei Liu
    Center of Structural Biochemistry, Karolinska Institutet NOVUM, 141 57 Huddinge, Sweden
    Nucleic Acids Res 36:3235-43. 2008
    ..On this basis possible DNA unwinding mechanisms are discussed...
  7. doi request reprint The lumazine synthase/riboflavin synthase complex: shapes and functions of a highly variable enzyme system
    Rudolf Ladenstein
    Department of Bioscience and Nutrition, Karolinska Institutet NOVUM, SE 14183 Huddinge, Sweden
    FEBS J 280:2537-63. 2013
    ..The occurrence of large shells consisting of 180 or more lumazine synthase subunits has recently generated interest for protein engineering topics, particularly the construction of encapsulation systems...
  8. ncbi request reprint Structural and thermodynamic insights into the binding mode of five novel inhibitors of lumazine synthase from Mycobacterium tuberculosis
    Ekaterina Morgunova
    Karolinska Institutet, Novum, Centre for Structural Biochemistry, Huddinge, Sweden
    FEBS J 273:4790-804. 2006
    ..tuberculosis...
  9. ncbi request reprint Crystal structure of the archaeal heat shock regulator from Pyrococcus furiosus: a molecular chimera representing eukaryal and bacterial features
    Wei Liu
    Karolinska Institutet NOVUM, Center for Structural Biochemistry, 141 57 Huddinge, Sweden
    J Mol Biol 369:474-88. 2007
    ..Molecular docking and mutational analyses suggested a novel binding mode in which the major specific contacts occur at the minor groove interacting with the strongly basic wing containing a cluster of three arginine residues...
  10. ncbi request reprint Structural and thermodynamic studies on a salt-bridge triad in the NADP-binding domain of glutamate dehydrogenase from Thermotoga maritima: cooperativity and electrostatic contribution to stability
    Joyce H G Lebbink
    Center for Structural Biochemistry, Department of Biosciences at Novum, Karolinska Institutet, 14157 Huddinge, Sweden
    Biochemistry 41:15524-35. 2002
    ....
  11. ncbi request reprint The catalytic mechanism of Drosophila alcohol dehydrogenase: evidence for a proton relay modulated by the coupled ionization of the active site Lysine/Tyrosine pair and a NAD+ ribose OH switch
    Assen Koumanov
    Department of Biosciences, Karolinska Institutet, Novum, Huddinge, Sweden
    Proteins 51:289-98. 2003
    ..The proton relay chain includes the active site catalytic residues, as well as a chain of eight water molecules that connects the active site with the bulk solvent...
  12. ncbi request reprint Ultrahigh-resolution study on Pyrococcus abyssi rubredoxin: II. Introduction of an O-H...Sgamma-Fe hydrogen bond increased the reduction potential by 65 mV
    Heiko Bönisch
    Center of Biosciences, Karolinska Institutet, Halsovagen 7 9, Huddinge, Sweden
    J Biol Inorg Chem 12:1163-71. 2007
    ..The structural analysis was based on ultrahigh-resolution structures of oxidized P. abyssi rubredoxin W4L/R5S and W4L/R5S/A44S refined to 0.69 and 0.86 A, respectively...
  13. ncbi request reprint The crystal structure of a hyperthermostable subfamily II isocitrate dehydrogenase from Thermotoga maritima
    Mikael Karlström
    Center for Structural Biochemistry, Karolinska Institutet, Novum, Huddinge, Sweden
    FEBS J 273:2851-68. 2006
    ..The residues responsible for the binding of isocitrate and NADP+ were found to be highly conserved between TmIDH and the mammalian IDHs and it is likely that the reaction mechanism is the same...
  14. ncbi request reprint The structure of the N-terminal domain of riboflavin synthase in complex with riboflavin at 2.6A resolution
    Winfried Meining
    Södertörns högskola, S 14189, Huddinge, Sweden
    J Mol Biol 331:1053-63. 2003
    ..The implications for the binding specificity and the regiospecificity of the catalyzed reaction are discussed...
  15. pmc Crystallization and preliminary X-ray analysis of a RecB-family nuclease from the archaeon Pyrococcus abyssi
    Bin Ren
    Center for Structural Biochemistry, Karolinska Institute, Novum, S 141 57 Huddinge, Sweden
    Acta Crystallogr Sect F Struct Biol Cryst Commun 63:406-8. 2007
    ..The crystals diffracted to about 2 A and a complete native data set was collected to 2.65 A resolution...
  16. ncbi request reprint The multi-layered structure of Dps with a novel di-nuclear ferroxidase center
    Bin Ren
    Center for Structural Biochemistry, Karolinska Institutet, Novum, S 141 57 Huddinge, Sweden
    J Mol Biol 329:467-77. 2003
    ..The highly ordered layered structure may provide an ideal basis for the accommodation of DNA between the layers so that it can be isolated and protected from harmful factors under stress conditions...
  17. ncbi request reprint Ultrahigh-resolution study on Pyrococcus abyssi rubredoxin. I. 0.69 A X-ray structure of mutant W4L/R5S
    Heiko Bönisch
    Karolinska Institutet, Department of Biosciences at Novum, Center for Structural Biochemistry, Halsovagen 7 9, S 14157 Huddinge, Sweden
    Acta Crystallogr D Biol Crystallogr 61:990-1004. 2005
    ....
  18. ncbi request reprint Crystallization and preliminary X-ray structure analysis of isocitrate dehydrogenase from two hyperthermophiles, Aeropyrum pernix and Thermotoga maritima
    Mikael Karlström
    Karolinska Institutet, Novum, Center for Structural Biochemistry, S 14157 Huddinge, Sweden
    Acta Crystallogr D Biol Crystallogr 58:2162-4. 2002
    ..8 A with Cu Kalpha radiation and belong to space group P2(1)2(1)2(1). The structures will be helpful in the study of the factors responsible for thermostability and the evolutionary relationships of IDHs...
  19. ncbi request reprint Isocitrate dehydrogenase from the hyperthermophile Aeropyrum pernix: X-ray structure analysis of a ternary enzyme-substrate complex and thermal stability
    Mikael Karlström
    Center for Structural Biochemistry, Department of Biosciences at Novum, Karolinska Institute, S 141 57 Huddinge, Sweden
    J Mol Biol 345:559-77. 2005
    ..2 A was used. A calculated net charge of only +1 compared to -19 and -25 in EcIDH and BsIDH, respectively, suggested a high degree of electrostatic optimization, which is known to be an important determinant for increased thermostability...
  20. ncbi request reprint Structure of bacterial 3beta/17beta-hydroxysteroid dehydrogenase at 1.2 A resolution: a model for multiple steroid recognition
    Jordi Benach
    Karolinska Institutet NOVUM, Center for Structural Biochemistry, S 14157 Huddinge, Sweden
    Biochemistry 41:14659-68. 2002
    ....
  21. ncbi request reprint Lumazine synthase from Candida albicans as an anti-fungal target enzyme: structural and biochemical basis for drug design
    Ekaterina Morgunova
    Karolinska Institutet, Novum, Centre for Structural Biochemistry, Halsovagen 7 9, S 14157 Huddinge, Sweden
    J Biol Chem 282:17231-41. 2007
    ..Structural comparison with previously determined structures of the enzyme.ligand complexes of other orthologue allowed modeling of the binding of four different inhibitors into the active site of lumazine synthase from Candida albicans...
  22. ncbi request reprint Dynamic arrangement of ion pairs and individual contributions to the thermal stability of the cofactor-binding domain of glutamate dehydrogenase from Thermotoga maritima
    Cristian Danciulescu
    Department of Biosciences and Nutrition, Karolinska Institutet, S 141 57 Huddinge, Sweden
    Biochemistry 46:8537-49. 2007
    ....
  23. ncbi request reprint Thermal stability of isocitrate dehydrogenase from Archaeoglobus fulgidus studied by crystal structure analysis and engineering of chimers
    Runar Stokke
    Department of Biology, University of Bergen, PO Box 7800, Jahnebakken 5, 5020, Bergen, Norway
    Extremophiles 11:481-93. 2007
    ..Common and unique heat adaptive traits of AfIDH with those recently observed for hyperthermophilic IDH from Aeropyrum pernix (ApIDH) and Thermotoga maritima (TmIDH) are discussed herein...
  24. ncbi request reprint The phosphofructokinase-B (MJ0406) from Methanocaldococcus jannaschii represents a nucleoside kinase with a broad substrate specificity
    Thomas Hansen
    Institut fur Allgemeine Mikrobiologie, Christian Albrechts Universitat Kiel, Am Botanischen Garten 1 9, 24118, Kiel, Germany
    Extremophiles 11:105-14. 2007
    ..Extremely low activity was found with fructose-6-phosphate. Further, the substrate specificity of closely related PFK-Bs from D. amylolyticus and A. pernix were reanalysed...
  25. doi request reprint A new series of N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives as inhibitors of lumazine synthase and riboflavin synthase: design, synthesis, biochemical evaluation, crystallography, and mechanistic implications
    Yanlei Zhang
    The Purdue Cancer Center, Purdue University, West Lafayette, IN 47907, USA
    J Org Chem 73:2715-24. 2008
    ....
  26. ncbi request reprint Multiple assembly states of lumazine synthase: a model relating catalytic function and molecular assembly
    Xiaofeng Zhang
    Karolinska Institutet, Department of Biosciences, Center for Structural Biochemistry, S 14157 Huddinge, Sweden
    J Mol Biol 362:753-70. 2006
    ..The data show that multiple assembly forms are a general feature of lumazine synthases...
  27. ncbi request reprint Structure of Methanocaldococcus jannaschii nucleoside kinase: an archaeal member of the ribokinase family
    Linda Arnfors
    Karolinska Institutet, Department of Biosciences at Novum, Center for Structural Biochemistry, Sweden
    Acta Crystallogr D Biol Crystallogr 62:1085-97. 2006
    ....
  28. ncbi request reprint Human spermatid-specific thioredoxin-1 (Sptrx-1) is a two-domain protein with oxidizing activity
    Alberto Jimenez
    Center for Biotechnology, Department of Biosciences at Novum, Karolinska Institutet, S 14157 Huddinge, Sweden
    FEBS Lett 530:79-84. 2002
    ..This oxidizing enzymatic activity suggests that Sptrx-1 might govern the stabilization (by disulfide cross-linking) of the different structures in the developing tail of spermatids and spermatozoa...
  29. ncbi request reprint Enzyme catalysis via control of activation entropy: site-directed mutagenesis of 6,7-dimethyl-8-ribityllumazine synthase
    Markus Fischer
    Institut fur Organische Chemie und Biochemie, Technische Universitat Munchen, Lichtenbergstr 4, D 85747 Garching, Germany
    J Mol Biol 326:783-93. 2003
    ..7 kJmol(-1). This suggests that the rate enhancement by the enzyme is predominantly achieved by establishing a favourable topological relation of the two substrates, whereas acid/base catalysis may play a secondary role...
  30. ncbi request reprint A structure-based model of the reaction catalyzed by lumazine synthase from Aquifex aeolicus
    Xiaofeng Zhang
    Karolinska Institute, Novum, Centre for Structural Biochemistry, S 14157 Huddinge, Sweden
    J Mol Biol 328:167-82. 2003
    ..A structural model of the catalytic process, which illustrates binding of substrates, enantiomer specificity, proton abstraction/donation, inorganic phosphate elimination, formation of the Schiff base and cyclization is proposed...
  31. ncbi request reprint The structure of the soluble domain of an archaeal Rieske iron-sulfur protein at 1.1 A resolution
    Heiko Bönisch
    Department of Biosciences at Novum, Center for Structural Biochemistry, Karolinska Institutet, Halsovagen 7 9, S 14157 Huddinge, Sweden
    J Mol Biol 319:791-805. 2002
    ....
  32. ncbi request reprint The 2.9A resolution crystal structure of malate dehydrogenase from Archaeoglobus fulgidus: mechanisms of oligomerisation and thermal stabilisation
    Adriana Irimia
    Laboratoire de Biophysique Moleculaire, Institut de Biologie Structurale J P Ebel CEA CNRS UJF, UMR 5075, 41 rue Jules Horowitz, 38027 Cedex 01, Grenoble, France
    J Mol Biol 335:343-56. 2004
    ....
  33. ncbi request reprint Functional properties of the protein disulfide oxidoreductase from the archaeon Pyrococcus furiosus: a member of a novel protein family related to protein disulfide-isomerase
    Emilia Pedone
    Istituto di Biostrutture e Bioimmagini, C N R, Napoli, Italy
    Eur J Biochem 271:3437-48. 2004
    ..These results and an investigation on genomic sequence databases indicate that PfPDO may be an ancestor of the eukaryotic PDI and belongs to a novel protein disulfide oxidoreductase family...
  34. ncbi request reprint Drosophila alcohol dehydrogenase: acetate-enzyme interactions and novel insights into the effects of electrostatics on catalysis
    Jordi Benach
    Center for Structural Biochemistry, Karolinska Institutet, 141 57 Huddinge, Sweden
    J Mol Biol 345:579-98. 2005
    ..We also re-examine the electrostatic influence of charged residues on the surface of the protein on the catalytic efficiency of the enzyme...
  35. ncbi request reprint Crystal structure of lumazine synthase from Mycobacterium tuberculosis as a target for rational drug design: binding mode of a new class of purinetrione inhibitors
    Ekaterina Morgunova
    Karolinska Institutet, Novum, Centre for Structural Biochemistry, S 14157 Huddinge, Sweden
    Biochemistry 44:2746-58. 2005
    ..Isothermal titration calorimetry measurements indicate highly specific binding of the purinetrione inhibitors to the M. tuberculosis enzyme with dissociation constants in micromolar range...
  36. ncbi request reprint Critical residues for structure and catalysis in short-chain dehydrogenases/reductases
    Charlotta Filling
    Department of Medical Biochemistry and Biophysics, Karolinska Institutet, SE 171 77 Stockholm, Sweden
    J Biol Chem 277:25677-84. 2002
    ..This extends the previously recognized catalytic triad of Ser-Tyr-Lys residues to form a tetrad of Asn-Ser-Tyr-Lys in the majority of characterized short-chain dehydrogenases/reductase enzymes...
  37. ncbi request reprint Formation of metal nanoclusters on specific surface sites of protein molecules
    Nathalie Braun
    Department of Chemistry, Technical University Munich, Lichtenbergstr 4, Garching, Germany
    J Mol Biol 321:341-53. 2002
    ....
  38. ncbi request reprint Protein stabilisation by compatible solutes: effect of mannosylglycerate on unfolding thermodynamics and activity of ribonuclease A
    Tiago Q Faria
    Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Rua da Quinta Grande 6, Apartado 127, 2780 156 Oeiras, Portugal
    Chembiochem 4:734-41. 2003
    ..The results are discussed in view of the physiological role of this charged compatible solute...
  39. pmc Design, synthesis, and biochemical evaluation of 1,5,6,7-tetrahydro-6,7-dioxo-9-D-ribitylaminolumazines bearing alkyl phosphate substituents as inhibitors of lumazine synthase and riboflavin synthase
    Mark Cushman
    Department of Medicinal Chemistry and Molecular Pharmacology, School of Pharmacy and Pharmaceutical Sciences, Purdue University, West Lafayette, Indiana 47907, USA
    J Org Chem 70:8162-70. 2005
    ..The additional carbonyl in the dioxolumazine system versus the purinetrione system was found to make a positive contribution to its binding to E. coli riboflavin synthase...