PUBLICATIONS

2013

Long D, Marshall CB, Bouvignies G, Mazhab-Jafari MT, Smith MJ, Ikura M, Kay LE. A Comparative CEST NMR Study of Slow Conformational Dynamics of Small GTPases Complexed with GTP and GTP Analogues. Angew Chem Int Ed Engl. 2013 Aug 22. doi: 10.1002/anie.201305434. [Epub ahead of print] PDF

Amador FJ, Kimlicka L, Stathopulos PB, Gasmi-Seabrook GM, Maclennan DH, Van Petegem F, Ikura M. Type 2 Ryanodine Receptor Domain A 5 Contains a Unique and Dynamic a-Helix That Transitions to a ß-Strand in a Mutant Linked with a Heritable Cardiomyopathy. J Mol Biol. 2013 Aug 23. doi:pii: S0022-2836(13)00535-4. PDF

Belzil C, Neumayer G, Vassilev AP, Yap KL, Konishi H, Rivest S, Sanada K, Ikura M, Nakatani Y, Nguyen MD. A Ca2+-dependent Mechanism of Neuronal Survival Mediated by the Microtubule-associated Protein p600. J Biol Chem. 2013 Aug 23;288(34):24452-64. PDF

Anandapadamanaban M, Andresen C, Helander S, Ohyama Y, Siponen MI, Lundström P, Kokubo T, Ikura M, Moche M, Sunnerhagen M. High-resolution structure of TBP with TAF1 reveals anchoring patterns in transcriptional regulation.Nat Struct Mol Biol. 2013 Aug;20(8):1008-14. PDF

Zhou Y, Srinivasan P, Razavi S, Seymour S, Meraner P, Gudlur A, Stathopulos PB, Ikura M, Rao A, Hogan PG. Initial activation of STIM1, the regulator of store-operated calcium entry.Nat Struct Mol Biol. 2013 Aug;20(8):973-81. PDF

Li C, Enomoto M, Rossi AM, Seo MD, Rahman T, Stathopulos PB, Taylor CW, Ikura M, Ames JB. CaBP1, a neuronal Ca2+ sensor protein, inhibits inositol trisphosphate receptors by clamping intersubunit interactions. Proc Natl Acad Sci U S A. 2013 May 21;110(21):8507-12. PDF

Ishiyama N, Tanaka N, Abe K, Yang YJ, Abbas YM, Umitsu M, Nagar B, Bueler SA, Rubinstein JL, Takeichi M, Ikura M. An autoinhibited structure of a-catenin and its implications for vinculin recruitment to adherens junctions. J Biol Chem. 2013 May 31;288(22):15913-25. PDF

Smith MJ, Neel BG, Ikura M. NMR-based functional profiling of RASopathies and oncogenic RAS mutations. Proc Natl Acad Sci U S A. 2013 Mar 19;110(12):4574-9. PDF

Findlay GM, Smith MJ, Lanner F, Hsiung MS, Gish GD, Petsalaki E, Cockburn K, Kaneko T, Huang H, Bagshaw RD, Ketela T, Tucholska M, Taylor L, Bowtell DD, Moffat J, Ikura M, Li SS, Sidhu SS, Rossant J, Pawson T. Interaction domains of Sos1/Grb2 are finely tuned for cooperative control of embryonic stem cell fate.Cell. 2013 Feb 28;152(5):1008-20. PDF

Desai R, Sarpal R, Ishiyama N, Pellikka M, Ikura M, Tepass U. Monomeric a-catenin links cadherin to the actin cytoskeleton. Nat Cell Biol. 2013 Mar;15(3):261-73. PDF

Mazhab-Jafari MT, Marshall CB, Stathopulos PB, Kobashigawa Y, Stambolic V, Kay LE, Inagaki F, Ikura M. Membrane-dependent modulation of the mTOR activator Rheb: NMR observations of a GTPase tethered to a lipid-bilayer nanodisc. J Am Chem Soc. 2013 Mar 6;135(9):3367-70. PDF

2012

Nanes BA, Chiasson-MacKenzie C, Lowery AM, Ishiyama N, Faundez V, Ikura M, Vincent PA, Kowalczyk AP. p120-catenin binding masks an endocytic signal conserved in classical cadherins. J Cell Biol. 2012 Oct 15;199(2):365-80. PDF

Denis CM, Chitayat S, Plevin MJ, Wang F, Thompson P, Liu S, Spencer HL, Ikura M, LeBrun DP, Smith SP. Structural basis of CBP/p300 recruitment in leukemia induction by E2A-PBX1. Blood. 2012 Nov 8;120(19):3968-77. PDF

Sharma P, Ishiyama N, Nair U, Li W, Dong A, Miyake T, Wilson A, Ryan T, MacLennan DH, Kislinger T, Ikura M, Dhe-Paganon S, Gramolini AO. Structural determination of the phosphorylation domain of the ryanodine receptor. FEBS J. 2012 Oct;279(20):3952-64. PDF

Yang Z, Xue B, Umitsu M, Ikura M, Muthuswamy SK, Neel BG. The signaling adaptor GAB1 regulates cell polarity by acting as a PAR protein scaffold. Mol Cell. 2012 Aug 10;47(3):469-83. PDF

Mazhab-Jafari MT, Marshall CB, Ishiyama N, Ho J, Di Palma V, Stambolic V, Ikura M. An autoinhibited noncanonical mechanism of GTP hydrolysis by Rheb maintains mTORC1 homeostasis. Structure. 2012 Sep 5;20(9):1528-39. PDF

Marshall CB, Meiri D, Smith MJ, Mazhab-Jafari MT, Gasmi-Seabrook GM, Rottapel R, Stambolic V, Ikura M. Probing the GTPase cycle with real-time NMR: GAP and GEF activities in cell extracts. Methods. 2012 Aug;57(4):473-85. PDF

Wang F, Marshall CB, Yamamoto K, Li GY, Gasmi-Seabrook GM, Okada H, Mak TW, Ikura M. Structures of KIX domain of CBP in complex with two FOXO3a transactivation domains reveal promiscuity and plasticity in coactivator recruitment. Proc Natl Acad Sci U S A. 2012 Apr 17;109(16):6078-83. PDF

Meiri D, Marshall CB, Greeve MA, Kim B, Balan M, Suarez F, Bakal C, Wu C, Larose J, Fine N, Ikura M, Rottapel R. Mechanistic insight into the microtubule and actin cytoskeleton coupling through dynein-dependent RhoGEF inhibition. Mol Cell. 2012 Mar 9;45(5):642-55. PDF

Ames JB, Lim S, Ikura M. Molecular structure and target recognition of neuronal calcium sensor proteins. Front Mol Neurosci. 2012 Jan 19;5:10. PDF

Seo MD, Velamakanni S, Ishiyama N, Stathopulos PB, Rossi AM, Khan SA, Dale P, Li C, Ames JB, Ikura M, Taylor CW. Structural and functional conservation of key domains in InsP3 and ryanodine receptors. Nature. 2012 Jan 29;483(7387):108-12. PDF

2011

Muik M, Fahrner M, Schindl R, Stathopulos P, Frischauf I, Derler I, Plenk P, Lackner B, Groschner K, Ikura M, Romanin C. STIM1 couples to ORAI1 via an intramolecular transition into an extended conformation. EMBO J. 2011 May 4;30(9):1678-89. PDF

Zheng L, Stathopulos PB, Schindl R, Li GY, Romanin C, Ikura M. Auto-inhibitory role of the EF-SAM domain of STIM proteins in store-operated calcium entry. Proc Natl Acad Sci U S A. 2011 Jan 25;108(4):1337-42. PDF

2010

Mizuno H, Mal TK, Wälchli M, Fukano T, Ikura M, Miyawaki A. Molecular basis of photochromism of a fluorescent protein revealed by direct 13C detection under laser illumination. J Biomol NMR. 2010 Dec;48(4):237-46. Epub 2010 Oct 30. PMID: 21052778 [PubMed - indexed for MEDLINE] PDF

Mao L, Stathopulos PB, Ikura M, Inouye M. Secretion of human superoxide dismutase in Escherichia coli using the condensed single-protein-production system. Protein Sci. 2010 Dec;19(12):2330-5. doi: 10.1002/pro.512. PMID: 20936670 [PubMed - indexed for MEDLINE]

Chan J, Yamazaki H, Ishiyama N, Seo MD, Mal TK, Michikawa T, Mikoshiba K, Ikura M. Structural studies of inositol 1,4,5-trisphosphate receptor: coupling ligand binding to channel gating. J Biol Chem. 2010 Nov 12;285(46):36092-9. Epub 2010 Sep 15. PMID: 20843799 [PubMed - indexed for MEDLINE] PDF

Yamazaki H, Chan J, Ikura M, Michikawa T, Mikoshiba K. Tyr-167/Trp-168 in type 1/3 inositol 1,4,5-trisphosphate receptor mediates functional coupling between ligand binding and channel opening. J Biol Chem. 2010 Nov 12;285(46):36081-91. Epub 2010 Sep 2. PMID: 20813840 [PubMed - indexed for MEDLINE] PDF

Li GY, McCulloch RD, Fenton AL, Cheung M, Meng L, Ikura M, Koch CA. Structure and identification of ADP-ribose recognition motifs of APLF and role in the DNA damage response. Proc Natl Acad Sci U S A. 2010 May 18;107(20):9129-34. Epub 2010 May 3. PMID: 20439749 [PubMed - indexed for MEDLINE] PDF

Ishiyama N, Lee SH, Liu S, Li GY, Smith MJ, Reichardt LF, Ikura M. Dynamics and static interactions between p120 catenin and E-cadherin regulate the stability of cell-cell adhesion. Cell. 2010 Apr 2;141(1):117-28.PMID: 20371349 [PubMed - indexed for MEDLINE] PDF

Sealey DC, Zheng L, Taboski MA, Cruickshank J, Ikura M, Harrington LA.The N-terminus of hTERT contains a DNA-binding domain and is required for telomerase activity and cellular immortalization. Nucleic Acids Res. 2010 Apr 1;38(6):2019-35. Epub 2009 Dec 23.PMID: 20034955 [PubMed - indexed for MEDLINE] PDF

Smith MJ, Hardy WR, Li GY, Goudreault M, Hersch S, Metalnikov P, Starostine A, Pawson T, Ikura M. The PTB domain of ShcA couples receptor activation to the cytoskeletal regulator IQGAP1. EMBO J. 2010 Mar 3;29(5):884-96. Epub 2010 Jan 14.PMID: 20075861 [PubMed - indexed for MEDLINE] PDF

Gasmi-Seabrook GM, Marshall CB, Cheung M, Kim B, Wang F, Jang YJ, Mak TW, Stambolic V, Ikura M. Real-time NMR study of guanine nucleotide exchange and activation of RhoA by PDZ-RhoGEF. J Biol Chem. 2010 Feb 19;285(8):5137-45. Epub 2009 Dec 17.PMID: 20018869 [PubMed - indexed for MEDLINE] PDF

Mazhab-Jafari MT, Marshall CB, Smith M, Gasmi-Seabrook GM, Stambolic V, Rottapel R, Neel BG, Ikura M. Real-time NMR study of three small GTPases reveals that fluorescent 2'(3')-O-(N-methylanthraniloyl)-tagged nucleotides alter hydrolysis and exchange kinetics. J Biol Chem. 2010 Feb 19;285(8):5132-6. Epub 2009 Dec 14.PMID: 20018863 [PubMed - indexed for MEDLINE] PDF

2009

Wang F, Marshall CB, Li GY, Yamamoto K, Mak TW, Ikura M. Synergistic interplay between promoter recognition and CBP/p300 coactivator recruitment by FOXO3a. ACS Chem Biol. 2009 Dec 18;4(12):1017-27.PMID: 19821614 [PubMed - indexed for MEDLINE] PDF

Nakamura S, Kuroki K, Ohki I, Sasaki K, Kajikawa M, Maruyama T, Ito M, Kameda Y, Ikura M, Yamamoto K, Matsumoto N, Maenaka K. Molecular basis for E-cadherin recognition by killer cell lectin-like receptor G1 (KLRG1). J Biol Chem. 2009 Oct 2;284(40):27327-35. Epub 2009 Aug 4.PMID: 19654330 [PubMed - indexed for MEDLINE] PDF

Amador FJ, Liu S, Ishiyama N, Plevin MJ, Wilson A, MacLennan DH, Ikura M. Crystal structure of type I ryanodine receptor amino-terminal beta-trefoil domain reveals a disease-associated mutation "hot spot" loop. Proc Natl Acad Sci U S A. 2009 Jul 7;106(27):11040-4. Epub 2009 Jun 18.PMID: 19541610 [PubMed - indexed for MEDLINE] PDF

Li GY, Zhang Y, Inouye M, Ikura M. Inhibitory mechanism of Escherichia coli RelE-RelB toxin-antitoxin module involeves a helix displacement near an mRNA interferase active site. J Biol Chem. 2009 May 22;284(21):14628-36. Epub 2009 Mar 18.PMID: 19297318 [PubMed - indexed for MEDLINE] PDF

Marshall CB, Ho J, Buerger C, Plevin MJ, Li GY, Li Z, Ikura M, Stambolic, V.
Characterization of intrinsic and TSC2 GAP-regulated GTPase activity of Rheb by real-time NMR. Science Signaling 2009 Jan 27;2(55):ra3. PMID: 19176517 [PubMed - indexed for MEDLINE] PDF

Stathopulos PB, Zheng L, Ikura M. Stromal Interaction Molecule (STIM) 1 and STIM2 Calcium Sensing Regions Exhibit Distinct Unfolding and Oligomerization Kinetics. J Biol Chem. 2009 Jan 9;284(2):728-32. Epub 2008 Nov 19. PMID: 19019825 [PubMed - indexed for MEDLINE] PDF

Li C, Chan J, Haeseleer F, Mikoshiba K, Palczewski K, Ikura M, Ames JB.
Structural insights into Ca2+-dependent regulation of Inositol 1,4,5,-trisphosphate receptors by CaBP1. J Biol Chem. 2009 Jan 23;284(4):2472-81. Epub 2008 Nov 13. PMID: 19008222 [PubMed - indexed for MEDLINE] PDF

2008

Feng Wang, Christopher B. Marshall, Kazuo Yamamoto, Guang-Yao Li, Michael J. Plevin, Han You, Tak W. Mak, M Ikura. Biochemical and structural characterization of an intramolecular interaction in FOXO3a and its binding with p53. J Mol Biol. 2008 Dec 19;384(3):590-603. Epub 2008 Sep 18. PMID: 18824006 [PubMed - indexed for MEDLINE] PDF

Plevin MJ, Hayashi I, Ikura, M. Characterization of a Conserved “Threonine Clasp” in CAP-Gly Domains: Role of a Functionally Critical OHπ Interaction in Protein Recognition.J Am Chem Soc. 2008 Nov 12;130(45):14918-9. Epub 2008 Oct 2. PMID: 18937471 [PubMed - indexed for MEDLINE] PDF

Stathopulos PB, Zheng L, Li GY, Plevin MJ, Ikura M. Structural and mechanistic insights into STIM1- mediated initiation of store-operated calcium entry.
Cell. 2008 Oct 3;135(1):110-22. PMID: 18854159 [PubMed - indexed for MEDLINE] PDF

Mizuno H, Mal TK, Wälchli M, Kikuchi A, Fukano T, Ando R, Jeyakanthan J, Taka J, Shiro Y, Ikura M, Miyawaki A. Light-dependent regulation of structural flexibility in a photochromic fluorescent protein.Proc Natl Acad Sci U S A. 2008 Jul 8;105(27):9227-32. Epub 2008 Jun 23.PMID: 18574155 [PubMed - indexed for MEDLINE] PDF

Li Guang-Yao, Zhang Yonglong, Inouye Masayori, Ikura, M.Structural mechanism for transcriptional autorepression of Escherichia coli antitoxin RelB/toxin RelE addiction module. J. Mol. Biol. J Mol Biol. 2008 Jun 27;380(1):107-19. Epub 2008 Apr 22. PMID: 18501926 [PubMed - indexed for MEDLINE] PDF

Zheng L, Stathopulos PB, Li GY, Ikura M. Biophysical characterization of the EF-hand and SAM domain containing Ca(2+) sensory region of STIM1 and STIM2. Biochem Biophys Res Commun. 2008 Apr 25;369(1):240-6. Epub 2007 Dec 31. PMID: 18166150 [PubMed - indexed for MEDLINE] PDF

2007

Chan J, Whitten AE, Jeffries CM, Bosanac I, Mal TK, Ito J, Porumb H, Michikawa T, Mikoshiba K, Trewhella J, Ikura M. Ligand-induced conformational changes via flexible linkers in the amino-terminal region of the inositol 1,4,5-trisphosphate receptor. J Mol Biol . 2007 Nov 9; 373 ( 5 ): 1269-80 . Epub 2007 Aug 29. PMID: 17915250 [PubMed - indexed for MEDLINE] PDF

Mal TK, Takahata S, Ki S, Zheng L, Kokubo T, Ikura M. Functional Silencing of TATA-binding Protein (TBP) by a Covalent Linkage of the N-terminal Domain of TBP-associated Factor 1. J Biol Chem . 2007 Jul 27; 282 ( 30 ): 22228-38 . Epub 2007 Jun 6. PMID: 17553784 [PubMed - indexed for MEDLINE] PDF

Iwai M, Michikawa T, Bosanac I, Ikura M, Mikoshiba K. Molecular basis of the isoform-specific ligand-binding affinity of inositol 1,4,5-trisphosphate receptors. J Biol Chem. 2007 Apr 27;282(17):12755-64. Epub 2007 Feb 27. PMID: 17327232 [PubMed - indexed for MEDLINE] PDF

Truong K, Sawano A, Miyawaki A, Ikura M. Calcium indicators based on calmodulin-fluorescent protein fusions. Methods Mol Biol. 2007;352:71-82. PMID: 17041259 [PubMed - indexed for MEDLINE]

Hayashi I, Plevin MJ, Ikura M. CLIP170 autoinhibition mimics intermolecular interactions with p150(Glued) or EB. Nat Struct Mol Biol . 2007 Oct; 14 ( 10 ): 980-1 . Epub 2007 Sep 9. PMID: 17828275 [PubMed - indexed for MEDLINE] PDF

Ikura T, Tashiro S, Kakino A, Shima H, Jacob N, Amunugama R, Yoder K, Izumi S, Kuraoka I, Tanaka K, Kimura H, Ikura M, Nishikubo S, Ito T, Muto A, Miyagawa K, Takeda S, Fishel R, Igarashi K, Kamiya K.DNA damage-dependent acetylation and ubiquitination of H2AX enhances chromatin dynamics. Mol Cell Biol . 2007 Oct; 27
(20 ): 7028-40 . Epub 2007 Aug 20. PMID: 17709392 [PubMed - indexed for MEDLINE] PDF

Hayashi I, Mizuno H, Tong KI, Furuta T, Tanaka F, Yoshimura M, Miyawaki A, Ikura M. Crystallographic Evidence for Water-assisted Photo-induced Peptide Cleavage in the Stony Coral Fluorescent Protein Kaede. J Mol Biol . 2007 Sep 28; 372 ( 4 ): 918-26 . Epub 2007 Jun 19. PMID: 17692334 [PubMed - indexed for MEDLINE] PDF

Zenke-Kawasaki Y, Dohi Y, Katoh Y, Ikura T, Ikura M, Asahara T, Tokunaga F, Iwai K, Igarashi K. Heme induces ubiquitination and degradation of the transcription factor Bach1. Mol Cell Biol . 2007 Oct; 27 ( 19 ): 6962-71 . Epub 2007 Aug 6. PMID: 17682061 [PubMed - indexed for MEDLINE] PDF

2006

Chan MC, Karasawa S, Mizuno H, Bosanac I, Ho D, Prive GG, Miyawaki A, Ikura M. Structural characterization of a blue chromoprotein and its yellow mutant from the sea anemone Cnidopus japonicus. J Biol Chem. 2006 Dec 8;281(49):37813-9. Epub 2006 Oct 6. PMID: 17028187 [PubMed - indexed for MEDLINE]PDF

Nishikubo S, Ohara M, Ikura M, Katayanagi K, Fujiwara T, Komatsuzawa H, Kurihara H, Sugai M. Single nucleotide polymorphism in the cytolethal distending toxin B gene confers heterogeneity in the cytotoxicity of Actinobacillus actinomycetemcomitans. Infect Immun. 2006 Dec;74(12):7014-20. Epub 2006 Sep 18. PMID: 16982823 [PubMed - indexed for MEDLINE]PDF

Stathopulos PB, Li GY, Plevin MJ, Ames JB, Ikura M. Stored Ca2+ depletion-induced oligomerization of stromal interaction molecule 1 (STIM1) via the EF-SAM region: An initiation mechanism for capacitive Ca2+ entry. J Biol Chem. 2006 Nov 24;281(47):35855-62. Epub 2006 Oct 3. PMID: 17020874 [PubMed - indexed for MEDLINE]PDF

Yamamoto S, Nakatani S, Ikura M, Sugiura T, Nishita Y, Itadani S, Ogawa K, Ohno H, Takahashi K, Nakai H, Toda M. Design and synthesis of an orally active matrix metalloproteinase inhibitor. Bioorg Med Chem. 2006 Sep 15;14(18):6383-403. Epub 2006 Jun 9. PMID: 16765051 [PubMed - indexed for MEDLINE]

Plevin MJ, Zhang J, Guo C, Roeder RG, Ikura M. The acute myeloid leukemia fusion protein AML1-ETO targets E proteins via a paired amphipathic helix-like TBP-associated factor homology domain. Proc Natl Acad Sci U S A. 2006 Jul 5;103(27):10242-7. Epub 2006 Jun 27. PMID: 16803958 [PubMed - indexed for MEDLINE]PDF

Kurokawa H, Ikura M. [Perspectives on structure elucidation of the cadherin-catenin complex] Seikagaku. 2006 Jul;78(7):595-600. Review. Japanese. No abstract available. PMID: 16910552 [PubMed - indexed for MEDLINE]

Ikura M, Nakatani S, Yamamoto S, Habashita H, Sugiura T, Takahashi K, Ogawa K, Ohno H, Nakai H, Toda M. Discovery of a new chemical lead for a matrix metalloproteinase inhibitor. Bioorg Med Chem. 2006 Jun 15;14(12):4241-52. Epub 2006 Feb 14. PMID: 16481176 [PubMed - indexed for MEDLINE]

Gombos Z, Yap KL, Ikura M, Chakrabartty A. NMR-driven secondary and tertiary structure model of Ca2+-loaded calexcitin. Biochem Biophys Res Commun. 2006 May 5;343(2):520-4. Epub 2006 Mar 10. PMID: 16546129 [PubMed - indexed for MEDLINE]PDF

2005

Li GY, Zhang Y, Chan MC, Mal TK, Hoeflich KP, Inouye M, Ikura M. Characterization of dual substrate binding sites in the homodimeric structure of Escherichia coli mRNA interferase MazF. J Mol Biol. 2006 Mar 17;357(1):139-50. Epub 2005 Dec 27. PMID: 16413577 [PubMed - indexed for MEDLINE]

Ikura M, Ames JB. Genetic polymorphism and protein conformational plasticity in the calmodulin superfamily: two ways to promote multifunctionality. Proc Natl Acad Sci U S A. 2006 Jan 31;103(5):1159-64. Epub 2006 Jan 23. PMID: 16432210 [PubMed - indexed for MEDLINE]

Wingard JN, Chan J, Bosanac I, Haeseleer F, Palczewski K, Ikura M, Ames JB. Structural analysis of Mg2+ and Ca2+ binding to CaBP1, a neuron-specific regulator of calcium channels. J Biol Chem. 2005 Nov 11;280(45):37461-70. Epub 2005 Sep 7. PMID: 16147998 [PubMed - indexed for MEDLINE]PDF

Kajiwara TH, Kataoka M, Hamamoto Y, Ikura M, Hosokawa K, Inoue T, Mogami H, Hiura M, Mochizuki T. [Prediction of pelvic control using MRI for patients with cervical carcinoma treated with radiotherapy] Nippon Igaku Hoshasen Gakkai Zasshi. 2005 Oct;65(4):438-43. Japanese. PMID: 16334399 [PubMed - indexed for MEDLINE]

Mal TK, Liu D, Masutomi Y, Zheng L, Nakatani Y, Kokubo T, Ikura M. Resonance assignments of 30 kDa complexes of TFIID subunit TAF1 with TATA-binding protein. J Biomol NMR. 2005 Sep;33(1):76. No abstract available. PMID: 16222567 [PubMed - indexed for MEDLINE]PDF

Hayashi I, Wilde A, Mal TK, Ikura M. Structural basis for the activation of microtubule assembly by the EB1 and p150Glued complex. Mol Cell. 2005 Aug 19;19(4):449-60. PMID: 16109370 [PubMed - indexed for MEDLINE]PDF

Takahashi K, Ikura M, Habashita H, Nishizaki M, Sugiura T, Yamamoto S, Nakatani S, Ogawa K, Ohno H, Nakai H, Toda M. Novel matrix metalloproteinase inhibitors: generation of lead compounds by the in silico fragment-based approach. Bioorg Med Chem. 2005 Jul 15;13(14):4527-43. PMID: 15908222 [PubMed - indexed for MEDLINE]

Osawa M, Dace A, Tong KI, Valiveti A, Ikura M, Ames JB. Mg2+ and Ca2+ differentially regulate DNA binding and dimerization of DREAM. J Biol Chem. 2005 May 6;280(18):18008-14. Epub 2005 Mar 3. PMID: 15746104 [PubMed - indexed for MEDLINE]PDF

Plevin MJ, Mills MM, Ikura M. The LxxLL motif: a multifunctional binding sequence in transcriptional regulation. Trends Biochem Sci. 2005 Feb;30(2):66-9. PMID: 15691650 [PubMed - indexed for MEDLINE]PDF

Bosanac I, Yamazaki H, Matsu-Ura T, Michikawa T, Mikoshiba K, Ikura M. Crystal structure of the ligand binding suppressor domain of type 1 inositol 1,4,5-trisphosphate receptor. Mol Cell. 2005 Jan 21;17(2):193-203. PMID: 15664189 [PubMed - indexed for MEDLINE]PDF

Khorchid A, Inouye M, Ikura M. Structural characterization of Escherichia coli sensor histidine kinase EnvZ: the periplasmic C-terminal core domain is critical for homodimerization. Biochem J. 2005 Jan 1;385(Pt 1):255-64. PMID: 15357641 [PubMed - indexed for MEDLINE]PDF

2004

Bosanac I, Michikawa T, Mikoshiba K, Ikura M. Structural insights into the regulatory mechanism of IP3 receptor. Biochim Biophys Acta. 2004 Dec 6;1742(1-3):89-102. Review. PMID: 15590059 [PubMed - indexed for MEDLINE]PDF

Hoeflich KP, Ikura M. Radixin: cytoskeletal adopter and signaling protein. Int J Biochem Cell Biol. 2004 Nov;36(11):2131-6. Review. PMID: 15313460 [PubMed - indexed for MEDLINE]PDF

Qing G, Ma LC, Khorchid A, Swapna GV, Mal TK, Takayama MM, Xia B, Phadtare S, Ke H, Acton T, Montelione GT, Ikura M, Inouye M. Cold-shock induced high-yield protein production in Escherichia coli. Nat Biotechnol. 2004 Jul;22(7):877-82. Epub 2004 Jun 13. PMID: 15195104 [PubMed - indexed for MEDLINE]PDF

Hayashi I, Ikura M. [Structural basis of microtubule plus-end-tracking proteins] Tanpakushitsu Kakusan Koso. 2004 Jul;49(9):1274-9. Review. Japanese. No abstract available. PMID: 15242053 [PubMed - indexed for MEDLINE]

Mal TK, Masutomi Y, Zheng L, Nakata Y, Ohta H, Nakatani Y, Kokubo T, Ikura M. Structural and functional characterization on the interaction of yeast TFIID subunit TAF1 with TATA-binding protein. J Mol Biol. 2004 Jun 11;339(4):681-93. PMID: 15165843 [PubMed - indexed for MEDLINE]PDF

Gooding JM, Yap KL, Ikura M. The cadherin-catenin complex as a focal point of cell adhesion and signalling: new insights from three-dimensional structures. Bioessays. 2004 May;26(5):497-511. Review. PMID: 15112230 [PubMed - indexed for MEDLINE]PDF

Abu-Abed M, Millet O, MacLennan DH, Ikura M. Probing nucleotide-binding effects on backbone dynamics and folding of the nucleotide-binding domain of the sarcoplasmic/endoplasmic-reticulum Ca2+-ATPase. Biochem J. 2004 Apr 15;379(Pt 2):235-42. PMID: 14987197 [PubMed - indexed for MEDLINE]PDF

Ghosh M, Elsby LM, Mal TK, Gooding JM, Roberts SG, Ikura M. Probing Zn2+-binding effects on the zinc-ribbon domain of human general transcription factor TFIIB. Biochem J. 2004 Mar 1;378(Pt 2):317-24. PMID: 14641108 [PubMed - indexed for MEDLINE]PDF

Zheng L, Hoeflich KP, Elsby LM, Ghosh M, Roberts SG, Ikura M. FRET evidence for a conformational change in TFIIB upon TBP-DNA binding. Eur J Biochem. 2004 Feb;271(4):792-800. PMID: 14764096 [PubMed - indexed for MEDLINE]PDF

2003

Nishikubo S, Ohara M, Ueno Y, Ikura M, Kurihara H, Komatsuzawa H, Oswald E, Sugai M. An N-terminal segment of the active component of the bacterial genotoxin cytolethal distending toxin B (CDTB) directs CDTB into the nucleus. J Biol Chem. 2003 Dec 12;278(50):50671-81. Epub 2003 Aug 28. PMID: 12947116 [PubMed - indexed for MEDLINE]PDF

Brokx RD, Revers L, Zhang Q, Yang S, Mal TK, Ikura M, Gariepy J. Nuclear magnetic resonance-based dissection of a glycosyltransferase specificity for the mucin MUC1 tandem repeat. Biochemistry. 2003 Dec 2;42(47):13817-25. PMID: 14636048 [PubMed - indexed for MEDLINE]PDF

Hoeflich KP, Tsukita S, Hicks L, Kay CM, Tsukita S, Ikura M. Insights into a single rod-like helix in activated radixin required for membrane-cytoskeletal cross-linking. Biochemistry. 2003 Oct 14;42(40):11634-41. PMID: 14529273 [PubMed - indexed for MEDLINE]PDF

Mizuno H, Mal TK, Tong KI, Ando R, Furuta T, Ikura M, Miyawaki A. Photo-induced peptide cleavage in the green-to-red conversion of a fluorescent protein. Mol Cell. 2003 Oct;12(4):1051-8. PMID: 14580354 [PubMed - indexed for MEDLINE]PDF

Zhang Y, Zhang J, Hoeflich KP, Ikura M, Qing G, Inouye M. MazF cleaves cellular mRNAs specifically at ACA to block protein synthesis in Escherichia coli. Mol Cell. 2003 Oct;12(4):913-23. PMID: 14580342 [PubMed - indexed for MEDLINE]PDF

Hayashi I, Ikura M. Crystal structure of the amino-terminal microtubule-binding domain of end-binding protein 1 (EB1). J Biol Chem. 2003 Sep 19;278(38):36430-4. Epub 2003 Jul 11. PMID: 12857735 [PubMed - indexed for MEDLINE]PDF

Truong K, Khorchid A, Ikura M. A fluorescent cassette-based strategy for engineering multiple domain fusion proteins. BMC Biotechnol. 2003 Jul 15;3:8. Epub 2003 Jul 15. PMID: 12864922 [PubMed - indexed for MEDLINE]PDF

Valentine KG, Mesleh MF, Opella SJ, Ikura M, Ames JB. Structure, topology, and dynamics of myristoylated recoverin bound to phospholipid bilayers. Biochemistry. 2003 Jun 3;42(21):6333-40. PMID: 12767213 [PubMed - indexed for MEDLINE]PDF

Gombos Z, Durussel I, Ikura M, Rose DR, Cox JA, Chakrabartty A. Conformational coupling of Mg2+ and Ca2+ on the three-state folding of calexcitin B. Biochemistry. 2003 May 13;42(18):5531-9. PMID: 12731896 [PubMed - indexed for MEDLINE]PDF

Truong K, Ikura M. Domain fusion analysis by applying relational algebra to protein sequence and domain databases. BMC Bioinformatics. 2003 May 6;4:16. Epub 2003 May 6. PMID: 12734020 [PubMed - indexed for MEDLINE]PDF

Kataoka M, Shinohara S, Ochi T, Sakamoto K, Ikura M, Hyoudou T, Inoue T, Mogami H, Kawamura M, Takashima S. [Results of accelerated hyperfractionated radiotherapy in breast conserving therapy: a pilot study] Nippon Igaku Hoshasen Gakkai Zasshi. 2003 May;63(5):231-6. Japanese. PMID: 12822449 [PubMed - indexed for MEDLINE]

Cai SJ, Khorchid A, Ikura M, Inouye M. Probing catalytically essential domain orientation in histidine kinase EnvZ by targeted disulfide crosslinking. J Mol Biol. 2003 Apr 25;328(2):409-18. PMID: 12691749 [PubMed - indexed for MEDLINE]PDF

Yap KL, Yuan T, Mal TK, Vogel HJ, Ikura M. Structural basis for simultaneous binding of two carboxy-terminal peptides of plant glutamate decarboxylase to calmodulin. J Mol Biol. 2003 Apr 18;328(1):193-204. PMID: 12684008 [PubMed - indexed for MEDLINE]PDF

2002

Rekas A, Alattia JR, Nagai T, Miyawaki A, Ikura M. Crystal structure of venus, a yellow fluorescent protein with improved maturation and reduced environmental sensitivity. J Biol Chem. 2002 Dec 27;277(52):50573-8. Epub 2002 Oct 4. PMID: 12370172 [PubMed - indexed for MEDLINE]PDF

Bosanac I, Alattia JR, Mal TK, Chan J, Talarico S, Tong FK, Tong KI, Yoshikawa F, Furuichi T, Iwai M, Michikawa T, Mikoshiba K, Ikura M. Structure of the inositol 1,4,5-trisphosphate receptor binding core in complex with its ligand. Nature. 2002 Dec 12;420(6916):696-700. Epub 2002 Nov 17. PMID: 12442173 [PubMed - indexed for MEDLINE]PDF

Stavropoulos DJ, Bradshaw PS, Li X, Pasic I, Truong K, Ikura M, Ungrin M, Meyn MS. The Bloom syndrome helicase BLM interacts with TRF2 in ALT cells and promotes telomeric DNA synthesis. Hum Mol Genet. 2002 Dec 1;11(25):3135-44. PMID: 12444098 [PubMed - indexed for MEDLINE]PDF

Mal TK, Ikura M, Kay LE. The ATCUN domain as a probe of intermolecular interactions: application to calmodulin-peptide complexes. J Am Chem Soc. 2002 Nov 27;124(47):14002-3. No abstract available. PMID: 12440892 [PubMed - indexed for MEDLINE]PDF

Mal TK, Skrynnikov NR, Yap KL, Kay LE, Ikura M. Detecting protein kinase recognition modes of calmodulin by residual dipolar couplings in solution NMR. Biochemistry. 2002 Oct 29;41(43):12899-906. PMID: 12390014 [PubMed - indexed for MEDLINE]PDF

Yoshida H, Alattia JR, Ikura M. [Molecular mechanism of cadherin-mediated cell-cell adhesion] Seikagaku. 2002 Oct;74(10):1266-71. Review. Japanese. No abstract available. PMID: 12476552 [PubMed - indexed for MEDLINE]

Ikura M, Osawa M, Ames JB. The role of calcium-binding proteins in the control of transcription: structure to function. Bioessays. 2002 Jul;24(7):625-36. Review. PMID: 12111723 [PubMed - indexed for MEDLINE]PDF

Osawa M, Ikura M. [NMR-based approach for drug discovery] Tanpakushitsu Kakusan Koso. 2002 Jun;47(8 Suppl):948-54. Review. Japanese. No abstract available. PMID: 12099045 [PubMed - indexed for MEDLINE]

Khorchid A, Ikura M. How calpain is activated by calcium. Nat Struct Biol. 2002 Apr;9(4):239-41. No abstract available. PMID: 11914728 [PubMed - indexed for MEDLINE]PDF

Hoeflich KP, Ikura M. Calmodulin in action: diversity in target recognition and activation mechanisms. Cell. 2002 Mar 22;108(6):739-42. Review. PMID: 11955428 [PubMed - indexed for MEDLINE]PDF

Abu-Abed M, Mal TK, Kainosho M, MacLennan DH, Ikura M. Characterization of the ATP-binding domain of the sarco(endo)plasmic reticulum Ca(2+)-ATPase: probing nucleotide binding by multidimensional NMR. Biochemistry. 2002 Jan 29;41(4):1156-64. PMID: 11802714 [PubMed - indexed for MEDLINE]PDF

Cheng HY, Pitcher GM, Laviolette SR, Whishaw IQ, Tong KI, Kockeritz LK, Wada T, Joza NA, Crackower M, Goncalves J, Sarosi I, Woodgett JR, Oliveira-dos-Santos AJ, Ikura M, van der Kooy D, Salter MW, Penninger JM. DREAM is a critical transcriptional repressor for pain modulation. Cell. 2002 Jan 11;108(1):31-43. PMID: 11792319 [PubMed - indexed for MEDLINE]PDF

Ames JB, Ikura M. Structure and membrane-targeting mechanism of retinal Ca2+-binding proteins, recoverin and GCAP-2. Adv Exp Med Biol. 2002;514:333-48. Review. PMID: 12596931 [PubMed - indexed for MEDLINE]

Truong K, Ikura M. Identification and characterization of subfamily-specific signatures in a large protein superfamily by a hidden Markov model approach. BMC Bioinformatics. 2002;3:1. Epub 2002 Jan 10. PMID: 11818024 [PubMed - indexed for MEDLINE]PDF

Truong K, Ikura M. The cadherin superfamily database. J Struct Funct Genomics. 2002;2(3):135-43. PMID: 12836704 [PubMed - indexed for MEDLINE]PDF

Yap KL, Ames JB, Swindells MB, Ikura M. Vector geometry mapping. A method to characterize the conformation of helix-loop-helix calcium-binding proteins. Methods Mol Biol. 2002;173:317-24. No abstract available. PMID: 11859772 [PubMed - indexed for MEDLINE]PDF

Mal TK, Bagby S, Ikura M. Protein structure calculation from NMR data. Methods Mol Biol. 2002;173:267-83. No abstract available. PMID: 11859768 [PubMed - indexed for MEDLINE]PDF

Hicks LD, Alattia JR, Ikura M, Kay CM. Multiangle laser light scattering and sedimentation equilibrium. Methods Mol Biol. 2002;173:127-36. No abstract available. PMID: 11859756 [PubMed - indexed for MEDLINE]

Alattia JR, Tong KI, Takeichi M, Ikura M. Cadherins. Methods Mol Biol. 2002;172:199-210. No abstract available. PMID: 11833347 [PubMed - indexed for MEDLINE]

2001

Truong K, Sawano A, Mizuno H, Hama H, Tong KI, Mal TK, Miyawaki A, Ikura M. FRET-based in vivo Ca2+ imaging by a new calmodulin-GFP fusion molecule. Nat Struct Biol. 2001 Dec;8(12):1069-73. PMID: 11702071 [PubMed - indexed for MEDLINE]PDF

Osawa M, Tong KI, Lilliehook C, Wasco W, Buxbaum JD, Cheng HY, Penninger JM, Ikura M, Ames JB. Calcium-regulated DNA binding and oligomerization of the neuronal calcium-sensing protein, calsenilin/DREAM/KChIP3. J Biol Chem. 2001 Nov 2;276(44):41005-13. Epub 2001 Sep 4. PMID: 11535596 [PubMed - indexed for MEDLINE]PDF

Truong K, Ikura M. The use of FRET imaging microscopy to detect protein-protein interactions and protein conformational changes in vivo. Curr Opin Struct Biol. 2001 Oct;11(5):573-8. Review. PMID: 11785758 [PubMed - indexed for MEDLINE]PDF

Kurokawa H, Osawa M, Kurihara H, Katayama N, Tokumitsu H, Swindells MB, Kainosho M, Ikura M. Target-induced conformational adaptation of calmodulin revealed by the crystal structure of a complex with nematode Ca(2+)/calmodulin-dependent kinase kinase peptide. J Mol Biol. 2001 Sep 7;312(1):59-68. Erratum in: J Mol Biol. 2005 Dec 9;354(4):1008. PMID: 11545585 [PubMed - indexed for MEDLINE]

Qi XF, Bagby S, Gombos Z, Ikura M, Chakrabartty A. Alternate routes to conformational specificity in a Greek key beta barrel protein. Eur J Biochem. 2001 Sep;268(17):4653-63. PMID: 11532002 [PubMed - indexed for MEDLINE]PDF

Ikura M. [Visualization of biological phenomena by a multidisciplinary approach] Tanpakushitsu Kakusan Koso. 2001 Aug;46(11 Suppl):1437-45. Review. Japanese. No abstract available. PMID: 11579536 [PubMed - indexed for MEDLINE]

Gombos Z, Jeromin A, Mal TK, Chakrabartty A, Ikura M. Calexcitin B is a new member of the sarcoplasmic calcium-binding protein family. J Biol Chem. 2001 Jun 22;276(25):22529-36. Epub 2001 Apr 16. PMID: 11306567 [PubMed - indexed for MEDLINE]PDF

2000

Bagby S, Tong KI, Ikura M. Optimization of protein solubility and stability for protein nuclear magnetic resonance. Methods Enzymol. 2001;339:20-41. Review. No abstract available. PMID: 11462812 [PubMed - indexed for MEDLINE]

Tepass U, Truong K, Godt D, Ikura M, Peifer M. Cadherins in embryonic and neural morphogenesis. Nat Rev Mol Cell Biol. 2000 Nov;1(2):91-100. Review. PMID: 11253370 [PubMed - indexed for MEDLINE]PDF

Ikura M, Yap KL. Where cancer meets calcium--p53 crosstalk with EF-hands. Nat Struct Biol. 2000 Jul;7(7):525-7. No abstract available. PMID: 10876230 [PubMed - indexed for MEDLINE]PDF

Tokumitsu H, Muramatsu M, Ikura M, Kobayashi R. Regulatory mechanism of Ca2+/calmodulin-dependent protein kinase kinase. J Biol Chem. 2000 Jun 30;275(26):20090-5. PMID: 10770941 [PubMed - indexed for MEDLINE]PDF

Kotani T, Banno K, Ikura M, Hinnebusch AG, Nakatani Y, Kawaichi M, Kokubo T. A role of transcriptional activators as antirepressors for the autoinhibitory activity of TATA box binding of transcription factor IID. Proc Natl Acad Sci U S A. 2000 Jun 20;97(13):7178-83. PMID: 10852950 [PubMed - indexed for MEDLINE]PDF

Qin L, Dutta R, Kurokawa H, Ikura M, Inouye M. A monomeric histidine kinase derived from EnvZ, an Escherichia coli osmosensor. Mol Microbiol. 2000 Apr;36(1):24-32. PMID: 10760160 [PubMed - indexed for MEDLINE]PDF

Bagby S, Mal TK, Liu D, Raddatz E, Nakatani Y, Ikura M. TFIIA-TAF regulatory interplay: NMR evidence for overlapping binding sites on TBP. FEBS Lett. 2000 Feb 25;468(2-3):149-54. PMID: 10692576 [PubMed - indexed for MEDLINE]PDF

Alattia JR, Tong FK, Tong KI, Ikura M. Sequence-specific resonance assignments and partial unfolding of extracellular domains II and III of E-cadherin. J Biomol NMR. 2000 Feb;16(2):181-2. No abstract available. PMID: 10723999 [PubMed - indexed for MEDLINE]PDF

Yap KL, Kim J, Truong K, Sherman M, Yuan T, Ikura M. Calmodulin target database. J Struct Funct Genomics. 2000;1(1):8-14. PMID: 12836676 [PubMed - indexed for MEDLINE]PDF

Ames JB, Ikura M, Stryer L. Molecular structure of membrane-targeting calcium sensors in vision: recoverin and guanylate cyclase-activating protein 2. Methods Enzymol. 2000;316:121-32. No abstract available. PMID: 10800672 [PubMed - indexed for MEDLINE]

1999

Yap KL, Ames JB, Swindells MB, Ikura M. Diversity of conformational states and changes within the EF-hand protein superfamily. Proteins. 1999 Nov 15;37(3):499-507. Review. PMID: 10591109 [PubMed - indexed for MEDLINE]PDF

Yokokura H, Osawa M, Inoue T, Umezawa I, Naito Y, Ikura M, Hidaka H. Symmetric covalent linkage of N-(6-aminohexyl)-5-chloro-1-naphthalenesulfonamide (W-7) results in novel derivatives with increased inhibitory activities against calcium/calmodulin complex. Drug Des Discov. 1999 Nov;16(3):203-16. PMID: 10624566 [PubMed - indexed for MEDLINE]

Osawa M, Tokumitsu H, Swindells MB, Kurihara H, Orita M, Shibanuma T, Furuya T, Ikura M. A novel target recognition revealed by calmodulin in complex with Ca2+-calmodulin-dependent kinase kinase. Nat Struct Biol. 1999 Sep;6(9):819-24. PMID: 10467092 [PubMed - indexed for MEDLINE]PDF

Tomomori C, Tanaka T, Dutta R, Park H, Saha SK, Zhu Y, Ishima R, Liu D, Tong KI, Kurokawa H, Qian H, Inouye M, Ikura M. Solution structure of the homodimeric core domain of Escherichia coli histidine kinase EnvZ. Nat Struct Biol. 1999 Aug;6(8):729-34. PMID: 10426948 [PubMed - indexed for MEDLINE]PDF

Ames JB, Dizhoor AM, Ikura M, Palczewski K, Stryer L. Three-dimensional structure of guanylyl cyclase activating protein-2, a calcium-sensitive modulator of photoreceptor guanylyl cyclases. J Biol Chem. 1999 Jul 2;274(27):19329-37. PMID: 10383444 [PubMed - indexed for MEDLINE]PDF

Alattia JR, Kurokawa H, Ikura M. Structural view of cadherin-mediated cell-cell adhesion. Cell Mol Life Sci. 1999 Mar;55(3):359-67. Review. PMID: 10336300 [PubMed - indexed for MEDLINE]PDF

Yanagida M, Ikura M, Morikawa K, Namba K, Inagaki F, Nishimura Y. [Aim of structural biology (discussion)] Tanpakushitsu Kakusan Koso. 1999 Mar;44(4 Suppl):614-29. Japanese. No abstract available. PMID: 10204015 [PubMed - indexed for MEDLINE]

Nakatani Y, Ikura M. [Structural basis for chromatin transcription] Tanpakushitsu Kakusan Koso. 1999 Mar;44(4 Suppl):430-7. Review. Japanese. No abstract available. PMID: 10203997 [PubMed - indexed for MEDLINE]

Kurokawa H, Alattia JR, Ikura M. [Structural biology of cell adhesion molecule cadherins] Tanpakushitsu Kakusan Koso. 1999 Mar;44(4 Suppl):311-7. Review. Japanese. No abstract available. PMID: 10203985 [PubMed - indexed for MEDLINE]

Osawa M, Kuwamoto S, Izumi Y, Yap KL, Ikura M, Shibanuma T, Yokokura H, Hidaka H, Matsushima N. Evidence for calmodulin inter-domain compaction in solution induced by W-7 binding. FEBS Lett. 1999 Jan 15;442(2-3):173-7. PMID: 9928996 [PubMed - indexed for MEDLINE]PDF

1998

Tanaka T, Saha SK, Tomomori C, Ishima R, Liu D, Tong KI, Park H, Dutta R, Qin L, Swindells MB, Yamazaki T, Ono AM, Kainosho M, Inouye M, Ikura M. NMR structure of the histidine kinase domain of the E. coli osmosensor EnvZ. Nature. 1998 Nov 5;396(6706):88-92. PMID: 9817206 [PubMed - indexed for MEDLINE]PDF

Liu D, Ishima R, Tong KI, Bagby S, Kokubo T, Muhandiram DR, Kay LE, Nakatani Y, Ikura M. Solution structure of a TBP-TAF(II)230 complex: protein mimicry of the minor groove surface of the TATA box unwound by TBP. Cell. 1998 Sep 4;94(5):573-83. PMID: 9741622 [PubMed - indexed for MEDLINE]PDF

Osawa M, Tomomori C, Ikura M. [Calmodulin: the progress in three-dimensional structure analysis] Tanpakushitsu Kakusan Koso. 1998 Sep;43(12 Suppl):1939-44. Review. Japanese. No abstract available. PMID: 9788206 [PubMed - indexed for MEDLINE]

Hayashi F, Ishima R, Liu D, Tong KI, Kim S, Reinberg D, Bagby S, Ikura M. Human general transcription factor TFIIB: conformational variability and interaction with VP16 activation domain. Biochemistry. 1998 Jun 2;37(22):7941-51. PMID: 9609687 [PubMed - indexed for MEDLINE]PDF

Bagby S, Go S, Inouye S, Ikura M, Chakrabartty A. Equilibrium folding intermediates of a Greek key beta-barrel protein. J Mol Biol. 1998 Feb 27;276(3):669-81. PMID: 9551104 [PubMed - indexed for MEDLINE]PDF

Osawa M, Swindells MB, Tanikawa J, Tanaka T, Mase T, Furuya T, Ikura M. Solution structure of calmodulin-W-7 complex: the basis of diversity in molecular recognition. J Mol Biol. 1998 Feb 13;276(1):165-76. PMID: 9514729 [PubMed - indexed for MEDLINE]

Tanaka T, Ames JB, Kainosho M, Stryer L, Ikura M. Differential isotype labeling strategy for determining the structure of myristoylated recoverin by NMR spectroscopy. J Biomol NMR. 1998 Feb;11(2):135-52. PMID: 9679292 [PubMed - indexed for MEDLINE]PDF

Bagby S, Arrowsmith CH, Ikura M. New perceptions of transcription factor properties from NMR. Biochem Cell Biol. 1998;76(2-3):368-78. Review. PMID: 9923706 [PubMed - indexed for MEDLINE]PDF

1997

Alattia JR, Ames JB, Porumb T, Tong KI, Heng YM, Ottensmeyer P, Kay CM, Ikura M. Lateral self-assembly of E-cadherin directed by cooperative calcium binding. FEBS Lett. 1997 Nov 17;417(3):405-8. PMID: 9409761 [PubMed - indexed for MEDLINE]PDF

Bagby S, Tong KI, Liu D, Alattia JR, Ikura M. The button test: a small scale method using microdialysis cells for assessing protein solubility at concentrations suitable for NMR. J Biomol NMR. 1997 Oct;10(3):279-82. PMID: 9390406 [PubMed - indexed for MEDLINE]PDF

Ames JB, Ishima R, Tanaka T, Gordon JI, Stryer L, Ikura M. Molecular mechanics of calcium-myristoyl switches. Nature. 1997 Sep 11;389(6647):198-202. PMID: 9296500 [PubMed - indexed for MEDLINE]PDF

Miyawaki A, Llopis J, Heim R, McCaffery JM, Adams JA, Ikura M, Tsien RY. Fluorescent indicators for Ca2+ based on green fluorescent proteins and calmodulin. Nature. 1997 Aug 28;388(6645):882-7. PMID: 9278050 [PubMed - indexed for MEDLINE]PDF

Ozawa T, Kakuta M, Sugawara M, Umezawa Y, Ikura M. An optical method for evaluating ion selectivity for calcium signaling pathways in the cell. Anal Chem. 1997 Aug 1;69(15):3081-5. PMID: 9253254 [PubMed - indexed for MEDLINE]PDF

Tsujimoto G, Noguchi T, Ikura M, Mizushima H, Kaneko S, Tanaka T. [Pharmacology and Internet] Nippon Yakurigaku Zasshi. 1997 Jul;110(1):31-6. Review. Japanese. No abstract available. PMID: 9285834 [PubMed - indexed for MEDLINE]

Ohki S, Ikura M, Zhang M. Identification of Mg2+-binding sites and the role of Mg2+ on target recognition by calmodulin. Biochemistry. 1997 Apr 8;36(14):4309-16. PMID: 9100027 [PubMed - indexed for MEDLINE]PDF

Nevalainen LT, Aoyama T, Ikura M, Crivici A, Yan H, Chua NH, Nairn AC. Characterization of novel calmodulin-binding peptides with distinct inhibitory effects on calmodulin-dependent enzymes. Biochem J. 1997 Jan 1;321 ( Pt 1):107-15. PMID: 9003408 [PubMed - indexed for MEDLINE]PDF

Porumb T, Crivici A, Blackshear PJ, Ikura M. Calcium binding and conformational properties of calmodulin complexed with peptides derived from myristoylated alanine-rich C kinase substrate (MARCKS) and MARCKS-related protein (MRP). Eur Biophys J. 1997;25(4):239-47. PMID: 9112755 [PubMed - indexed for MEDLINE]PDF

1996

Ames JB, Tanaka T, Stryer L, Ikura M. Portrait of a myristoyl switch protein. Curr Opin Struct Biol. 1996 Aug;6(4):432-8. Review. PMID: 8794166 [PubMed - indexed for MEDLINE]

Swindells MB, Ikura M. Pre-formation of the semi-open conformation by the apo-calmodulin C-terminal domain and implications binding IQ-motifs. Nat Struct Biol. 1996 Jun;3(6):501-4. No abstract available. PMID: 8646534 [PubMed - indexed for MEDLINE]

Overduin M, Tong KI, Kay CM, Ikura M. 1H, 15N and 13C resonance assignments and monomeric structure of the amino-terminal extracellular domain of epithelial cadherin. J Biomol NMR. 1996 May;7(3):173-89. PMID: 8785495 [PubMed - indexed for MEDLINE]

Nagar B, Overduin M, Ikura M, Rini JM. Structural basis of calcium-induced E-cadherin rigidification and dimerization. Nature. 1996 Mar 28;380(6572):360-4. PMID: 8598933 [PubMed - indexed for MEDLINE]

Nakatani Y, Bagby S, Ikura M. The histone folds in transcription factor TFIID. J Biol Chem. 1996 Mar 22;271(12):6575-8. PMID: 8636069 [PubMed - indexed for MEDLINE]PDF

Martin SR, Bayley PM, Brown SE, Porumb T, Zhang M, Ikura M. Spectroscopic characterization of a high-affinity calmodulin-target peptide hybrid molecule. Biochemistry. 1996 Mar 19;35(11):3508-17. PMID: 8639501 [PubMed - indexed for MEDLINE]PDF

Prozialeck WC, Lamar PC, Ikura M. Binding of cadmium (Cd2+) to E-CAD1, a calcium-binding polypeptide analog of E-cadherin. Life Sci. 1996;58(20):PL325-30. PMID: 8637391 [PubMed - indexed for MEDLINE]PDF

Ikura M. Calcium binding and conformational response in EF-hand proteins. Trends Biochem Sci. 1996 Jan;21(1):14-7. Review. PMID: 8848832 [PubMed - indexed for MEDLINE]

1995

Ames JB, Tanaka T, Ikura M, Stryer L. Nuclear magnetic resonance evidence for Ca(2+)-induced extrusion of the myristoyl group of recoverin. J Biol Chem. 1995 Dec 29;270(52):30909-13. PMID: 8537345 [PubMed - indexed for MEDLINE]PDF

Bagby S, Kim S, Maldonado E, Tong KI, Reinberg D, Ikura M. Solution structure of the C-terminal core domain of human TFIIB: similarity to cyclin A and interaction with TATA-binding protein. Cell. 1995 Sep 8;82(5):857-67. PMID: 7671313 [PubMed - indexed for MEDLINE]

Zhang M, Tanaka T, Ikura M. Calcium-induced conformational transition revealed by the solution structure of apo calmodulin. Nat Struct Biol. 1995 Sep;2(9):758-67. PMID: 7552747 [PubMed - indexed for MEDLINE]

Tanaka T, Ames JB, Harvey TS, Stryer L, Ikura M. Sequestration of the membrane-targeting myristoyl group of recoverin in the calcium-free state. Nature. 1995 Aug 3;376(6539):444-7. PMID: 7630423 [PubMed - indexed for MEDLINE]

Ames JB, Porumb T, Tanaka T, Ikura M, Stryer L. Amino-terminal myristoylation induces cooperative calcium binding to recoverin. J Biol Chem. 1995 Mar 3;270(9):4526-33. PMID: 7876221 [PubMed - indexed for MEDLINE]

Overduin M, Harvey TS, Bagby S, Tong KI, Yau P, Takeichi M, Ikura M. Solution structure of the epithelial cadherin domain responsible for selective cell adhesion. Science. 1995 Jan 20;267(5196):386-9. PMID: 7824937 [PubMed - indexed for MEDLINE]

Crivici A, Ikura M. Molecular and structural basis of target recognition by calmodulin. Annu Rev Biophys Biomol Struct. 1995;24:85-116. Review. PMID: 7663132 [PubMed - indexed for MEDLINE]

1994

Ikura M, Inouye S. [Three-dimensional structure of an extracellular calcium binding protein, protein S. spore adhesion in myxobacteria] Seikagaku. 1994 Dec;66(12):1502-10. Review. Japanese. No abstract available. PMID: 7884274 [PubMed - indexed for MEDLINE]

Mori S, Kato H, Katsuta S, Ikura M, Takeuchi T, Ishikura N, Matsumoto M, Matsumoto T, Date T, Nishimura M. [Fatal case of pheochromocytoma crisis evoked by mycoplasma pneumonia] Nippon Naika Gakkai Zasshi. 1994 Oct 10;83(10):1829-30. Japanese. No abstract available. PMID: 7814962 [PubMed - indexed for MEDLINE]

Tong KI, Yau P, Overduin M, Bagby S, Porumb T, Takeichi M, Ikura M. Purification and spectroscopic characterization of a recombinant amino-terminal polypeptide fragment of mouse epithelial cadherin. FEBS Lett. 1994 Oct 3;352(3):318-22. PMID: 7925993 [PubMed - indexed for MEDLINE]

Ames JB, Tanaka T, Stryer L, Ikura M. Secondary structure of myristoylated recoverin determined by three-dimensional heteronuclear NMR: implications for the calcium-myristoyl switch. Biochemistry. 1994 Sep 6;33(35):10743-53. PMID: 8075075 [PubMed - indexed for MEDLINE]

Bagby S, Harvey TS, Eagle SG, Inouye S, Ikura M. Structural similarity of a developmentally regulated bacterial spore coat protein to beta gamma-crystallins of the vertebrate eye lens. Proc Natl Acad Sci U S A. 1994 May 10;91(10):4308-12. PMID: 8183906 [PubMed - indexed for MEDLINE]

Bagby S, Harvey TS, Kay LE, Eagle SG, Inouye S, Ikura M. Unusual helix-containing greek keys in development-specific Ca(2+)-binding protein S. 1H, 15N, and 13C assignments and secondary structure determined with the use of multidimensional double and triple resonance heteronuclear NMR spectroscopy. Biochemistry. 1994 Mar 8;33(9):2409-21. PMID: 8117701 [PubMed - indexed for MEDLINE]

Bagby S, Harvey TS, Eagle SG, Inouye S, Ikura M. NMR-derived three-dimensional solution structure of protein S complexed with calcium. Structure. 1994 Feb 15;2(2):107-22. PMID: 8081742 [PubMed - indexed for MEDLINE]

Porumb T, Yau P, Harvey TS, Ikura M. A calmodulin-target peptide hybrid molecule with unique calcium-binding properties. Protein Eng. 1994 Jan;7(1):109-15. PMID: 8140087 [PubMed - indexed for MEDLINE]

1992

Barbato G, Ikura M, Kay LE, Pastor RW, Bax A. Backbone dynamics of calmodulin studied by 15N relaxation using inverse detected two-dimensional NMR spectroscopy: the central helix is flexible. Biochemistry. 1992 Jun 16;31(23):5269-78. PMID: 1606151 [PubMed - indexed for MEDLINE]

Ikura M, Barbato G, Klee CB, Bax A. Solution structure of calmodulin and its complex with a myosin light chain kinase fragment. Cell Calcium. 1992 Jun-Jul;13(6-7):391-400. PMID: 1505004 [PubMed - indexed for MEDLINE]

Ikura M, Clore GM, Gronenborn AM, Zhu G, Klee CB, Bax A. Solution structure of a calmodulin-target peptide complex by multidimensional NMR. Science. 1992 May 1;256(5057):632-8. PMID: 1585175 [PubMed - indexed for MEDLINE]

Ikura M. [Multi-dimensional NMR and its application to the structural analysis of proteins] Tanpakushitsu Kakusan Koso. 1992 Feb;37(3 Suppl):492-507. Review. Japanese. No abstract available. PMID: 1549725 [PubMed - indexed for MEDLINE]

 


Dr. Ikura's Publications BEFORE 1992 (62 of 148)