Kosuke Morikawa

Summary

Affiliation: Biomolecular Engineering Research Institute
Country: Japan

Publications

  1. ncbi Structural insights into the PIP2 recognition by syntenin-1 PDZ domain
    Takuma Sugi
    Department of Molecular Biology, Biomolecular Engineering Research Institute BERI, 6 2 3, Furuedai, Suita, Osaka 565 0874, Japan
    Biochem Biophys Res Commun 366:373-8. 2008
  2. ncbi Crystal structure of the RuvA-RuvB complex: a structural basis for the Holliday junction migrating motor machinery
    Kazuhiro Yamada
    Biomolecular Engineering Research Institute, Suita, Osaka, Japan
    Mol Cell 10:671-81. 2002
  3. ncbi Ligand-induced domain rearrangement of fatty acid beta-oxidation multienzyme complex
    Daisuke Tsuchiya
    Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Structure 14:237-46. 2006
  4. pmc Expression, purification, crystallization and preliminary X-ray analysis of the ligand-binding domain of metabotropic glutamate receptor 7
    Takanori Muto
    Biomolecular Engineering Research Institute, Suita, Osaka 565 0874, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 63:627-30. 2007
  5. ncbi [Ligand recognition mechanism of G-CSF receptor and metabotropic glutamate receptor]
    Kosuke Morikawa
    Department of Structural Biology, Biomolecular Engineering Research Institute BERI, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Yakugaku Zasshi 122:855-68. 2002
  6. pmc Crystallization and preliminary X-ray analysis of the Pax6 paired domain bound to the Pax6 gene enhancer
    Makoto Ito
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 61:1009-12. 2005
  7. doi Structural insight into PPARgamma activation through covalent modification with endogenous fatty acids
    Tsuyoshi Waku
    Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, Suita, Osaka, Japan
    J Mol Biol 385:188-99. 2009
  8. ncbi Crystal structure and functional implications of Pyrococcus furiosus hef helicase domain involved in branched DNA processing
    Tatsuya Nishino
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Structure 13:143-53. 2005
  9. pmc The nuclear receptor PPARγ individually responds to serotonin- and fatty acid-metabolites
    Tsuyoshi Waku
    The Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, Furuedai, Suita, Osaka, Japan
    EMBO J 29:3395-407. 2010
  10. pmc Phosphorylated intrinsically disordered region of FACT masks its nucleosomal DNA binding elements
    Yasuo Tsunaka
    Takara Bio Endowed Laboratory, Institute for Protein Research, Osaka University, Suita, Osaka 565 0874, Japan
    J Biol Chem 284:24610-21. 2009

Collaborators

Detail Information

Publications58

  1. ncbi Structural insights into the PIP2 recognition by syntenin-1 PDZ domain
    Takuma Sugi
    Department of Molecular Biology, Biomolecular Engineering Research Institute BERI, 6 2 3, Furuedai, Suita, Osaka 565 0874, Japan
    Biochem Biophys Res Commun 366:373-8. 2008
    ..These structural features well explain biological phenomena, which were previously reported for the PIP(2)-mediated PDZ ligand-binding regulation...
  2. ncbi Crystal structure of the RuvA-RuvB complex: a structural basis for the Holliday junction migrating motor machinery
    Kazuhiro Yamada
    Biomolecular Engineering Research Institute, Suita, Osaka, Japan
    Mol Cell 10:671-81. 2002
    ....
  3. ncbi Ligand-induced domain rearrangement of fatty acid beta-oxidation multienzyme complex
    Daisuke Tsuchiya
    Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Structure 14:237-46. 2006
    ..The conformational changes suggest the structural events occurring during the chain reaction catalyzed by the multienzyme complex...
  4. pmc Expression, purification, crystallization and preliminary X-ray analysis of the ligand-binding domain of metabotropic glutamate receptor 7
    Takanori Muto
    Biomolecular Engineering Research Institute, Suita, Osaka 565 0874, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 63:627-30. 2007
    ..4, c = 114.3 A. Assuming the presence of one protomer per crystallographic asymmetric unit, the Matthews coefficient V(M) was calculated to be 2.5 A3 Da(-1) and the solvent content was 51%...
  5. ncbi [Ligand recognition mechanism of G-CSF receptor and metabotropic glutamate receptor]
    Kosuke Morikawa
    Department of Structural Biology, Biomolecular Engineering Research Institute BERI, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Yakugaku Zasshi 122:855-68. 2002
    ..Four domain movements within the dimer affect the separation of the transmembrane and intracellular regions and thereby activate the receptor...
  6. pmc Crystallization and preliminary X-ray analysis of the Pax6 paired domain bound to the Pax6 gene enhancer
    Makoto Ito
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 61:1009-12. 2005
    ..0/3.7 A resolution and belongs to the monoclinic space group P2(1), with unit-cell parameters a = 62.21, b = 70.69, c = 176.03 A, beta = 90.54 degrees. Diffraction data were collected to 3.7 A resolution...
  7. doi Structural insight into PPARgamma activation through covalent modification with endogenous fatty acids
    Tsuyoshi Waku
    Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, Suita, Osaka, Japan
    J Mol Biol 385:188-99. 2009
    ..This study presents the structural basis for the activation and modulation mechanism of PPARgamma through covalent modification with endogenous fatty acids...
  8. ncbi Crystal structure and functional implications of Pyrococcus furiosus hef helicase domain involved in branched DNA processing
    Tatsuya Nishino
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Structure 13:143-53. 2005
    ..Hence, our findings provide a structural basis for the functional mechanisms of this helicase/nuclease family...
  9. pmc The nuclear receptor PPARγ individually responds to serotonin- and fatty acid-metabolites
    Tsuyoshi Waku
    The Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, Furuedai, Suita, Osaka, Japan
    EMBO J 29:3395-407. 2010
    ..Collectively, these results suggest a novel agonism, in which PPARγ functions as a multiple sensor in response to distinct metabolites...
  10. pmc Phosphorylated intrinsically disordered region of FACT masks its nucleosomal DNA binding elements
    Yasuo Tsunaka
    Takara Bio Endowed Laboratory, Institute for Protein Research, Osaka University, Suita, Osaka 565 0874, Japan
    J Biol Chem 284:24610-21. 2009
    ..Importantly, this control mechanism appears to support rapid chromatin transactions during early embryogenesis through the dephosphorylation of some sites in the maternally transmitted dSSRP1...
  11. ncbi The clamp-loading complex for processive DNA replication
    Tomoko Miyata
    Department of Structural Biology, Biomolecular Engineering Research Institute, Suita, Osaka 565 0874, Japan
    Nat Struct Mol Biol 11:632-6. 2004
    ..The atomic structure of PCNA fits well into the closed ring, suggesting that this ternary complex represents a state just after the PCNA ring has closed to encircle the DNA duplex...
  12. pmc Atomic structures and functional implications of the archaeal RecQ-like helicase Hjm
    Takuji Oyama
    The Takara Bio Endowed Division, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology OLABB, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    BMC Struct Biol 9:2. 2009
    ..Elucidation of the DNA unwinding and translocation mechanisms by PfuHjm will require its three-dimensional structure at atomic resolution...
  13. pmc Open clamp structure in the clamp-loading complex visualized by electron microscopic image analysis
    Tomoko Miyata
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Proc Natl Acad Sci U S A 102:13795-800. 2005
    ..The complex appears to represent the intermediate, where the PCNA ring is kept open before ATP hydrolysis by RFC...
  14. ncbi Identification of the critical region in replication factor C from Pyrococcus furiosus for the stable complex formation with proliferating cell nuclear antigen and DNA
    Hirokazu Nishida
    Department of Structural Biology, Biomolecular Engineering Research Institute, Suita, Osaka, Japan
    Genes Genet Syst 80:83-93. 2005
    ..The mutational analyses showed that the charged cluster is not essential for loading of PCNA onto DNA. However, the region containing the basic cluster is important for the stable ternary (RFC-PCNA-DNA) complex formation...
  15. ncbi Mutational analysis of Pyrococcus furiosus replication factor C based on the three-dimensional structure
    Sonoko Ishino
    Department of Molecular Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, 565 0874 Suita, Osaka, Japan
    Extremophiles 7:169-75. 2003
    ..These results contribute to our general understanding of the structure-function relationship of the RFC molecule for the clamp-loading event...
  16. ncbi [Three-dimensional structural view of the mechanism of Holliday junction migration]
    Kazuhiro Yamada
    Biomolecular Engineering Research Institute BERI, 6 2 3 Furuedai, Suita, Osaka 565 0874
    Seikagaku 74:1251-9. 2002
  17. ncbi Structural and functional analyses of an archaeal XPF/Rad1/Mus81 nuclease: asymmetric DNA binding and cleavage mechanisms
    Tatsuya Nishino
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Structure 13:1183-92. 2005
    ..Upon binding to DNA, Hef nuclease disrupts base pairs near the cleavage site. It is most likely that this bipartite binding mode is conserved in the XPF/Rad1/Mus81 nuclease family...
  18. ncbi The closed structure of an archaeal DNA ligase from Pyrococcus furiosus
    Hirokazu Nishida
    Department of Structural Biology, Biomolecular Engineering Research Institute BERI, Osaka 565 0874, Japan
    J Mol Biol 360:956-67. 2006
    ..This sequence is also conserved exclusively among the covalent nucleotidyltransferases, even including mRNA-capping enzymes with similar helical extensions at the C termini...
  19. pmc Structures of the extracellular regions of the group II/III metabotropic glutamate receptors
    Takanori Muto
    Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Proc Natl Acad Sci U S A 104:3759-64. 2007
    ..We propose a general activation mechanism of the dimeric receptor coupled with both ligand-binding and interprotomer rearrangements...
  20. ncbi Three-dimensional structural views of branch migration and resolution in DNA homologous recombination
    Kazuhiro Yamada
    Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Curr Opin Struct Biol 14:130-7. 2004
    ..The mechanism of junction resolution by RuvC in the RuvABC resolvasome remains to be elucidated...
  21. pmc Crystal structures of autoinhibitory PDZ domain of Tamalin: implications for metabotropic glutamate receptor trafficking regulation
    Takuma Sugi
    Department of Molecular Biology, Biomolecular Engineering Research Institute, Suita, Osaka, Japan
    EMBO J 26:2192-205. 2007
    ..Our study suggests a novel regulatory mechanism of the PDZ domain, by which Tamalin switches between the trafficking-inhibited and -active forms depending on mGluR association...
  22. pmc Proline cis/trans-isomerase Pin1 regulates peroxisome proliferator-activated receptor gamma activity through the direct binding to the activation function-1 domain
    Yoshito Fujimoto
    The Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    J Biol Chem 285:3126-32. 2010
    ..Thus, our results suggest that Pin1 regulates macrophage function through the direct binding to the phosphorylated AF-1 domain of PPARgamma...
  23. pmc Overexpression, purification and crystallization of an archaeal DNA ligase from Pyrococcus furiosus
    Hirokazu Nishida
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 61:1100-2. 2005
    ..7 A resolution. They belong to the monoclinic space group P2(1), with unit-cell parameters a = 61.1, b = 88.3, c = 63.4 A, beta = 108.9 degrees. The asymmetric unit contains one ligase molecule...
  24. ncbi Three-dimensional structure of non-activated cGMP phosphodiesterase 6 and comparison of its image with those of activated forms
    Naoko Kajimura
    Biomolecular Engineering Research Institute, 6 2 3, Furuedai, Suita, Osaka 565 0874, Japan
    J Struct Biol 139:27-38. 2002
    ..These observations suggest that the basic structure of PDE does not change during its regulation, which implies that Palphabeta is regulated by its regional interaction with Pgamma...
  25. pmc Architectures of archaeal GINS complexes, essential DNA replication initiation factors
    Takuji Oyama
    Laboratory of Protein Organic Chemistry, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology OLABB, Osaka 565 0874, Japan
    BMC Biol 9:28. 2011
    ..Due to the low sequence similarity between the archaeal and eukaryotic GINS subunits, the atomic structures of the archaeal GINS complexes are attracting interest for comparisons of their subunit architectures and organization...
  26. ncbi X-ray and biochemical anatomy of an archaeal XPF/Rad1/Mus81 family nuclease: similarity between its endonuclease domain and restriction enzymes
    Tatsuya Nishino
    Department of Structural Biology, Biomolecular Engineering Research Institute BERI, 6 2 3 Furuedai, Suita, 565 0874, Osaka, Japan
    Structure 11:445-57. 2003
    ..Simultaneous disruptions of both interfaces result in their dissociation into separate monomers, with strikingly reduced endonuclease activities...
  27. pmc Site-specific unglycosylation to improve crystallization of the metabotropic glutamate receptor 3 extracellular domain
    Takanori Muto
    Biomolecular Engineering Research Institute, Suita, Osaka, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 65:236-41. 2009
    ..0, b = 97.5, c = 108.1 A, beta = 93.0 degrees . Assuming the presence of two protomers per crystallographic asymmetric unit, the Matthews coefficient V(M) was calculated to be 3.5 A(3) Da(-1) and the solvent content was 65%...
  28. doi Detecting structural similarity of ligand interactions in the lipid metabolic system including enzymes, lipid-binding proteins and nuclear receptors
    Clara Shionyu-Mitsuyama
    Open Laboratories of Advanced Bioscience and Biotechnology, Institute for Protein Research, Osaka University, 6 2 3, Furuedai, Suita, Osaka 565 0874, Japan
    Protein Eng Des Sel 24:397-403. 2011
    ....
  29. pmc Stoichiometric complex formation by proliferating cell nuclear antigen (PCNA) and its interacting protein: purification and crystallization of the DNA polymerase and PCNA monomer mutant complex from Pyrococcus furiosus
    Hirokazu Nishida
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 62:253-6. 2006
    ..The best ordered crystal diffracted to 3.0 A resolution using synchrotron radiation. The crystals belong to space group P2(1)2(1)2, with unit-cell parameters a = 225.3, b = 123.3, c = 91.3 A...
  30. pmc Alteration of the nucleosomal DNA path in the crystal structure of a human nucleosome core particle
    Yasuo Tsunaka
    Department of Structural Biology, Biomolecular Engineering Research Institute 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Nucleic Acids Res 33:3424-34. 2005
    ..Therefore, in contrast to the histone octamer, the nucleosomal DNA is sufficiently flexible and mobile and can undergo drastic conformational changes, depending upon the environment...
  31. pmc Intermolecular ion pairs maintain the toroidal structure of Pyrococcus furiosus PCNA
    Shigeki Matsumiya
    Department of Structural Biology, Biomolecular Engineering Research Institute, Osaka 565 0874, Japan
    Protein Sci 12:823-31. 2003
    ..The comparison of the crystal structures revealed intriguing conformational flexibility of each domain in the PfuPCNA subunit. This structural versatility of PCNA may be involved in the mechanisms for ring opening and closing...
  32. ncbi Solution structure of the HMG-box domain in the SSRP1 subunit of FACT
    Nobuyuki Kasai
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, 565 0874 Suita, Osaka, Japan
    J Biomol NMR 32:83-8. 2005
  33. ncbi Domain architectures and characterization of an RNA-binding protein, TLS
    Yuko Iko
    Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    J Biol Chem 279:44834-40. 2004
    ..0 x 10(-5) m, whereas the RRM domain showed no observable interaction with this RNA. This surprising result implies that the zinc finger domain plays a more predominant role in RNA recognition than the RRM domain...
  34. pmc Structural basis for channelling mechanism of a fatty acid beta-oxidation multienzyme complex
    Momoyo Ishikawa
    Biomolecular Engineering Research Institute, Furuedai, Suita, Osaka, Japan
    EMBO J 23:2745-54. 2004
    ..This channelling mechanism could be applied to other beta-oxidation multienzymes, as revealed from the homology model of the human mitochondrial trifunctional enzyme complex...
  35. doi Atomic structure of mutant PPARgamma LBD complexed with 15d-PGJ2: novel modulation mechanism of PPARgamma/RXRalpha function by covalently bound ligands
    Tsuyoshi Waku
    The Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, 6 2 3, Furuedai, Suita, Osaka 565 0874, Japan
    FEBS Lett 583:320-4. 2009
    ....
  36. ncbi Comparison of MukB homodimer versus MukBEF complex molecular architectures by electron microscopy reveals a higher-order multimerization
    Kyoko Matoba
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita City, Osaka 565 0874, Japan
    Biochem Biophys Res Commun 333:694-702. 2005
    ..In addition, MukBEF complex molecules tend to form multimers by the end-to-end joining with other MukBEF molecules in an intermolecular fashion, resulting in fibers and rosette-form structures in the absence of ATP and DNA in vitro...
  37. ncbi Structure and function of nucleases in DNA repair: shape, grip and blade of the DNA scissors
    Tatsuya Nishino
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Oncogene 21:9022-32. 2002
    ..This review focuses on the three-dimensional structure-function relationships of nucleases crucial for DNA repair processes...
  38. ncbi Structure of the metabotropic glutamate receptor
    Hisato Jingami
    Department of Molecular Biology, Biomolecular Engineering Research Institute, 6 2 3 Suita City, Osaka 565 0874, Japan
    Curr Opin Neurobiol 13:271-8. 2003
    ....
  39. pmc Adaptability and selectivity of human peroxisome proliferator-activated receptor (PPAR) pan agonists revealed from crystal structures
    Takuji Oyama
    The Takara Bio Endowed Division, Department of Biomolecular Recognition, Institute for Protein Research, Osaka University, Open Laboratories of Advanced Bioscience and Biotechnology, Suita, Osaka 565 0874, Japan
    Acta Crystallogr D Biol Crystallogr 65:786-95. 2009
    ..The comparison between the two PPARdelta complexes revealed how each ligand exhibits either a ;dual selective' or ;single specific' binding mode...
  40. ncbi NMR and ICP spectroscopic analysis of the DNA-binding domain of the Drosophila GCM protein reveals a novel Zn2+ -binding motif
    Masato Shimizu
    Biomolecular Engineering Research Institute, 6 2 3 Furue dai, Suita, Osaka 560 0874, Japan
    Protein Eng 16:247-54. 2003
    ....
  41. ncbi Hexameric ring structure of the ATPase domain of the membrane-integrated metalloprotease FtsH from Thermus thermophilus HB8
    Hajime Niwa
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka, Japan
    Structure 10:1415-23. 2002
    ....
  42. ncbi [Substrate-channelling mechanism of a fatty acid beta-oxidation multienzyme complex]
    Momoyo Ishikawa
    Tanpakushitsu Kakusan Koso 50:1197-204. 2005
  43. pmc Structural views of the ligand-binding cores of a metabotropic glutamate receptor complexed with an antagonist and both glutamate and Gd3+
    Daisuke Tsuchiya
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3 Furuedai, Suita, Osaka 565 0874, Japan
    Proc Natl Acad Sci U S A 99:2660-5. 2002
    ..These findings provide a structural basis to describe the link between ligand binding and the dimer interface...
  44. ncbi Three-dimensional electron microscopy of the reverse gyrase from Sulfolobus tokodaii
    Kyoko Matoba
    Department of Structural Biology, Biomolecular Engineering Research Institute BERI, 6 2 3 Furuedai, Suita City, Osaka 565 0874, Japan
    Biochem Biophys Res Commun 297:749-55. 2002
    ..We also speculate that DNA may pass through a 20A wide hole at the end of the cleft...
  45. ncbi Physical interaction between proliferating cell nuclear antigen and replication factor C from Pyrococcus furiosus
    Shigeki Matsumiya
    Department of Structural Biology, Biomolecular Engineering Research Institute, 6 2 3, Furuedai, Suita, Osaka 565 0874, Japan
    Genes Cells 7:911-22. 2002
    ..This allowed us to examine its interaction with the loading factor at the atomic level...
  46. ncbi Interaction of T4 endonuclease V with DNA: importance of the flexible loop regions in protein-DNA interaction
    Hee Chul Ahn
    National Research Laboratory for MPS, College of Pharmacy, Seoul National University, San 56 1, Shinlim Dong, Kwanak gu, Seoul 151 742, Korea
    J Biol Chem 278:30985-92. 2003
    ..These results imply that two flexible loop regions may play an important role in DNA binding and in scanning along DNA duplex to search the thymine dimer sites in UV-damaged DNA...
  47. ncbi Investigation of the cyclobutane pyrimidine dimer (CPD) photolyase DNA recognition mechanism by NMR analyses
    Takuya Torizawa
    Graduate School of Pharmaceutical Sciences, The University of Tokyo, Hongo, Bunkyo ku, Tokyo 113 0033, Japan
    J Biol Chem 279:32950-6. 2004
    ..Finally, NMR analyses of a double-stranded DNA (dsDNA)-CPD photolyase complex indicated that the CPD is flipped out of the dsDNA by the enzyme, to gain access to the active site...
  48. ncbi Structure-based design and synthesis of fluorescent PPARalpha/delta co-agonist and its application as a probe for fluorescent polarization assay of PPARdelta ligands
    Yoko Araya
    Institute of Molecular and Cellular Biosciences, University of Tokyo, Tokyo, Japan
    Chem Pharm Bull (Tokyo) 56:1357-9. 2008
    ..This fluorescent co-agonist was applied in a homogeneous fluorescent polarization assay format for the identification of PPARdelta ligands...
  49. ncbi Structure of the whole cytosolic region of ATP-dependent protease FtsH
    Ryoji Suno
    Chemical Resources Laboratory, Tokyo Institute of Technology, 4259 Nagatsuta, Yokohama 226 8503, Japan
    Mol Cell 22:575-85. 2006
    ..The protease catalytic sites are accessible only through a tunnel following from the AAA+ domain of the adjacent subunit, raising a possibility of translocation of polypeptide substrate to the protease sites through this tunnel...
  50. ncbi Crystallographic studies on human BST-1/CD157 with ADP-ribosyl cyclase and NAD glycohydrolase activities
    Sumie Yamamoto-Katayama
    Department of Molecular Biology, Research Institute BERI, Suita City, Osaka, Japan
    J Mol Biol 316:711-23. 2002
    ..The three key residues are invariant among the sequences of BST-1, CD38, and Aplysia cyclase, and hence this substrate recognition mode and catalytic scheme appear to be common in the cyclase family...
  51. ncbi [Structural biology for the initial stages of DNA replication]
    Takuji Oyama
    Tanpakushitsu Kakusan Koso 47:919-25. 2002
  52. ncbi [Metabotropic glutamate receptor trafficking mechanism--autoinhibitory role of a scaffold protein tamalin]
    Takuma Sugi
    Group of Molecular Neurobiology, Graduate School of Science, Nagoya University, Japan
    Seikagaku 80:416-20. 2008
  53. ncbi 1H, 13C and 15N backbone resonance assignments of the N-terminal domain of Drosophila GCM protein
    Masato Shimizu
    J Biomol NMR 26:277-8. 2003
  54. ncbi Electron microscopic single particle analysis of a tetrameric RuvA/RuvB/Holliday junction DNA complex
    Kouta Mayanagi
    Nagahama Institute of Bio Science and Technology, 1266 Tamura cho, Nagahama, Shiga 526 0829, Japan
    Biochem Biophys Res Commun 365:273-8. 2008
    ..The novel bent images of the complex revealed an intriguing morphological similarity to the structure of SV40 large T antigen, which belongs to the same AAA+ family as RuvB...
  55. ncbi Crystallization and preliminary crystallographic study of DNA polymerase from Pyrococcus furiosus
    Hirokazu Nishida
    Central Research Lab, Hitachi Ltd, Kokubunji, Tokyo, Japan
    Protein Pept Lett 14:403-5. 2007
    ..7 degrees , and gamma = 90 degrees . Assuming the presence of one molecule in the asymmetric unit, the solvent content of the crystal is estimated to be 54%, corresponding to a Matthews coefficient V(M) of 2.7A (3) Da(-1)...
  56. ncbi [Thoughts on double-helix DNA]
    Kosuke Morikawa
    Tanpakushitsu Kakusan Koso 48:671-2. 2003
  57. ncbi Mechanisms of maintaining genetic stability by homologous recombination
    Yoshizumi Ishino
    Department of Genetic Resources Technology, Faculty of Agriculture, Kyushu University, Fukukoka shi, Fukuoka, Japan
    Chem Rev 106:324-39. 2006
  58. ncbi [Open, set, and close: DNA clamp loading mechanism revealed by electron microscopy]
    Tomoko Miyata
    Tanpakushitsu Kakusan Koso 51:155-61. 2006