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Items: 44

1.

Real-time observation of flexible domain movements in CRISPR-Cas9.

Osuka S, Isomura K, Kajimoto S, Komori T, Nishimasu H, Shima T, Nureki O, Uemura S.

EMBO J. 2018 Apr 12. pii: e96941. doi: 10.15252/embj.201796941. [Epub ahead of print]

2.

Generation of tumor antigen-specific murine CD8+ T cells with enhanced anti-tumor activity via highly efficient CRISPR/Cas9 genome editing.

Ouchi Y, Patil A, Tamura Y, Nishimasu H, Negishi A, Paul SK, Takemura N, Satoh T, Kimura Y, Kurachi M, Nureki O, Nakai K, Kiyono H, Uematsu S.

Int Immunol. 2018 Apr 3;30(4):141-154. doi: 10.1093/intimm/dxy006.

PMID:
29617862
3.

Real-space and real-time dynamics of CRISPR-Cas9 visualized by high-speed atomic force microscopy.

Shibata M, Nishimasu H, Kodera N, Hirano S, Ando T, Uchihashi T, Nureki O.

Nat Commun. 2017 Nov 10;8(1):1430. doi: 10.1038/s41467-017-01466-8.

4.

Structural Basis for the Canonical and Non-canonical PAM Recognition by CRISPR-Cpf1.

Yamano T, Zetsche B, Ishitani R, Zhang F, Nishimasu H, Nureki O.

Mol Cell. 2017 Aug 17;67(4):633-645.e3. doi: 10.1016/j.molcel.2017.06.035. Epub 2017 Aug 3.

PMID:
28781234
5.

Structural Basis for the Altered PAM Recognition by Engineered CRISPR-Cpf1.

Nishimasu H, Yamano T, Gao L, Zhang F, Ishitani R, Nureki O.

Mol Cell. 2017 Jul 6;67(1):139-147.e2. doi: 10.1016/j.molcel.2017.04.019. Epub 2017 Jun 6.

PMID:
28595896
6.

Engineered Cpf1 variants with altered PAM specificities.

Gao L, Cox DBT, Yan WX, Manteiga JC, Schneider MW, Yamano T, Nishimasu H, Nureki O, Crosetto N, Zhang F.

Nat Biotechnol. 2017 Aug;35(8):789-792. doi: 10.1038/nbt.3900. Epub 2017 Jun 5.

7.

Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems.

Yamada M, Watanabe Y, Gootenberg JS, Hirano H, Ran FA, Nakane T, Ishitani R, Zhang F, Nishimasu H, Nureki O.

Mol Cell. 2017 Mar 16;65(6):1109-1121.e3. doi: 10.1016/j.molcel.2017.02.007.

8.

Structures and mechanisms of CRISPR RNA-guided effector nucleases.

Nishimasu H, Nureki O.

Curr Opin Struct Biol. 2017 Apr;43:68-78. doi: 10.1016/j.sbi.2016.11.013. Epub 2016 Nov 30. Review.

9.

Crystal Structure of Silkworm PIWI-Clade Argonaute Siwi Bound to piRNA.

Matsumoto N, Nishimasu H, Sakakibara K, Nishida KM, Hirano T, Ishitani R, Siomi H, Siomi MC, Nureki O.

Cell. 2016 Oct 6;167(2):484-497.e9. doi: 10.1016/j.cell.2016.09.002. Epub 2016 Sep 29.

10.

Crystal structure of the plant receptor-like kinase TDR in complex with the TDIF peptide.

Morita J, Kato K, Nakane T, Kondo Y, Fukuda H, Nishimasu H, Ishitani R, Nureki O.

Nat Commun. 2016 Aug 8;7:12383. doi: 10.1038/ncomms12383.

11.

Structural and functional insights into IZUMO1 recognition by JUNO in mammalian fertilization.

Kato K, Satouh Y, Nishimasu H, Kurabayashi A, Morita J, Fujihara Y, Oji A, Ishitani R, Ikawa M, Nureki O.

Nat Commun. 2016 Jul 15;7:12198. doi: 10.1038/ncomms12198.

12.

Crystal Structure of Cpf1 in Complex with Guide RNA and Target DNA.

Yamano T, Nishimasu H, Zetsche B, Hirano H, Slaymaker IM, Li Y, Fedorova I, Nakane T, Makarova KS, Koonin EV, Ishitani R, Zhang F, Nureki O.

Cell. 2016 May 5;165(4):949-62. doi: 10.1016/j.cell.2016.04.003. Epub 2016 Apr 21.

13.

Structural basis for specific inhibition of Autotaxin by a DNA aptamer.

Kato K, Ikeda H, Miyakawa S, Futakawa S, Nonaka Y, Fujiwara M, Okudaira S, Kano K, Aoki J, Morita J, Ishitani R, Nishimasu H, Nakamura Y, Nureki O.

Nat Struct Mol Biol. 2016 May;23(5):395-401. doi: 10.1038/nsmb.3200. Epub 2016 Apr 4.

PMID:
27043297
14.

Structural Basis for the Altered PAM Specificities of Engineered CRISPR-Cas9.

Hirano S, Nishimasu H, Ishitani R, Nureki O.

Mol Cell. 2016 Mar 17;61(6):886-94. doi: 10.1016/j.molcel.2016.02.018.

15.

Structure and biological function of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase.

Morita J, Kano K, Kato K, Takita H, Sakagami H, Yamamoto Y, Mihara E, Ueda H, Sato T, Tokuyama H, Arai H, Asou H, Takagi J, Ishitani R, Nishimasu H, Nureki O, Aoki J.

Sci Rep. 2016 Feb 18;6:20995. doi: 10.1038/srep20995.

16.

Structure and Engineering of Francisella novicida Cas9.

Hirano H, Gootenberg JS, Horii T, Abudayyeh OO, Kimura M, Hsu PD, Nakane T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O.

Cell. 2016 Feb 25;164(5):950-61. doi: 10.1016/j.cell.2016.01.039. Epub 2016 Feb 11.

17.

[Structure and function of CRISPR-Cas9].

Nishimasu H.

Seikagaku. 2015 Dec;87(6):686-92. Review. Japanese. No abstract available.

PMID:
26863746
18.

Archaeal Mo-Containing Glyceraldehyde Oxidoreductase Isozymes Exhibit Diverse Substrate Specificities through Unique Subunit Assemblies.

Wakagi T, Nishimasu H, Miyake M, Fushinobu S.

PLoS One. 2016 Jan 25;11(1):e0147333. doi: 10.1371/journal.pone.0147333. eCollection 2016.

19.

Crystal Structure of Staphylococcus aureus Cas9.

Nishimasu H, Cong L, Yan WX, Ran FA, Zetsche B, Li Y, Kurabayashi A, Ishitani R, Zhang F, Nureki O.

Cell. 2015 Aug 27;162(5):1113-26. doi: 10.1016/j.cell.2015.08.007.

20.

Crystal Structure and Activity of the Endoribonuclease Domain of the piRNA Pathway Factor Maelstrom.

Matsumoto N, Sato K, Nishimasu H, Namba Y, Miyakubi K, Dohmae N, Ishitani R, Siomi H, Siomi MC, Nureki O.

Cell Rep. 2015 Apr 21;11(3):366-75. doi: 10.1016/j.celrep.2015.03.030. Epub 2015 Apr 9.

21.

Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex.

Konermann S, Brigham MD, Trevino AE, Joung J, Abudayyeh OO, Barcena C, Hsu PD, Habib N, Gootenberg JS, Nishimasu H, Nureki O, Zhang F.

Nature. 2015 Jan 29;517(7536):583-8. doi: 10.1038/nature14136. Epub 2014 Dec 10.

22.

Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Enpp6.

Morita J, Kato K, Mihara E, Ishitani R, Takagi J, Nishimasu H, Aoki J, Nureki O.

Acta Crystallogr F Struct Biol Commun. 2014 Jun;70(Pt 6):794-9. doi: 10.1107/S2053230X14008929. Epub 2014 May 24.

23.

Crystal structure of Cas9 in complex with guide RNA and target DNA.

Nishimasu H, Ran FA, Hsu PD, Konermann S, Shehata SI, Dohmae N, Ishitani R, Zhang F, Nureki O.

Cell. 2014 Feb 27;156(5):935-49. doi: 10.1016/j.cell.2014.02.001. Epub 2014 Feb 13.

24.

Structural basis for potent inhibition of SIRT2 deacetylase by a macrocyclic peptide inducing dynamic structural change.

Yamagata K, Goto Y, Nishimasu H, Morimoto J, Ishitani R, Dohmae N, Takeda N, Nagai R, Komuro I, Suga H, Nureki O.

Structure. 2014 Feb 4;22(2):345-52. doi: 10.1016/j.str.2013.12.001. Epub 2014 Jan 2.

25.

[Structural biology of ubiquitin signaling].

Nishimasu H, Ishitani R, Nureki O.

Seikagaku. 2013 Jun;85(6):423-9. Review. Japanese. No abstract available.

PMID:
23875469
26.

Screening and X-ray crystal structure-based optimization of autotaxin (ENPP2) inhibitors, using a newly developed fluorescence probe.

Kawaguchi M, Okabe T, Okudaira S, Nishimasu H, Ishitani R, Kojima H, Nureki O, Aoki J, Nagano T.

ACS Chem Biol. 2013 Aug 16;8(8):1713-21. doi: 10.1021/cb400150c. Epub 2013 Jun 3.

PMID:
23688339
27.

Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Zucchini from Drosophila melanogaster.

Fukuhara S, Nishimasu H, Bonnefond L, Matsumoto N, Ishitani R, Nureki O.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Nov 1;68(Pt 11):1346-50. doi: 10.1107/S1744309112038936. Epub 2012 Oct 30.

28.

The tRNA recognition mechanism of folate/FAD-dependent tRNA methyltransferase (TrmFO).

Yamagami R, Yamashita K, Nishimasu H, Tomikawa C, Ochi A, Iwashita C, Hirata A, Ishitani R, Nureki O, Hori H.

J Biol Chem. 2012 Dec 14;287(51):42480-94. doi: 10.1074/jbc.M112.390112. Epub 2012 Oct 24.

29.

Structure and function of Zucchini endoribonuclease in piRNA biogenesis.

Nishimasu H, Ishizu H, Saito K, Fukuhara S, Kamatani MK, Bonnefond L, Matsumoto N, Nishizawa T, Nakanaga K, Aoki J, Ishitani R, Siomi H, Siomi MC, Nureki O.

Nature. 2012 Nov 8;491(7423):284-7. doi: 10.1038/nature11509. Epub 2012 Oct 14.

PMID:
23064230
30.

Specific recognition of linear polyubiquitin by A20 zinc finger 7 is involved in NF-κB regulation.

Tokunaga F, Nishimasu H, Ishitani R, Goto E, Noguchi T, Mio K, Kamei K, Ma A, Iwai K, Nureki O.

EMBO J. 2012 Oct 3;31(19):3856-70. doi: 10.1038/emboj.2012.241. Epub 2012 Aug 28.

31.

Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling.

Kato K, Nishimasu H, Okudaira S, Mihara E, Ishitani R, Takagi J, Aoki J, Nureki O.

Proc Natl Acad Sci U S A. 2012 Oct 16;109(42):16876-81. doi: 10.1073/pnas.1208017109. Epub 2012 Oct 1.

32.

Molecular dynamics simulation of Autotaxin: roles of the nuclease-like domain and the glycan modification.

Koyama M, Nishimasu H, Ishitani R, Nureki O.

J Phys Chem B. 2012 Oct 4;116(39):11798-808. doi: 10.1021/jp303198u. Epub 2012 Sep 24.

PMID:
22967301
33.

Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Enpp1.

Kato K, Nishimasu H, Mihara E, Ishitani R, Takagi J, Aoki J, Nureki O.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Jul 1;68(Pt 7):778-82. doi: 10.1107/S1744309112019306. Epub 2012 Jun 27.

34.

A 3D view of autotaxin.

Nishimasu H, Ishitani R, Aoki J, Nureki O.

Trends Pharmacol Sci. 2012 Mar;33(3):138-45. doi: 10.1016/j.tips.2011.12.004. Epub 2012 Jan 23. Review.

PMID:
22277299
35.

Structural basis for the bifunctionality of fructose-1,6-bisphosphate aldolase/phosphatase.

Fushinobu S, Nishimasu H, Hattori D, Song HJ, Wakagi T.

Nature. 2011 Oct 9;478(7370):538-41. doi: 10.1038/nature10457.

PMID:
21983966
36.

Crystal structure of autotaxin and insight into GPCR activation by lipid mediators.

Nishimasu H, Okudaira S, Hama K, Mihara E, Dohmae N, Inoue A, Ishitani R, Takagi J, Aoki J, Nureki O.

Nat Struct Mol Biol. 2011 Feb;18(2):205-12. doi: 10.1038/nsmb.1998. Epub 2011 Jan 16.

PMID:
21240269
37.

Crystal structure of a PFU-PUL domain pair of Saccharomyces cerevisiae Doa1/Ufd3.

Nishimasu R, Komori H, Higuchi Y, Nishimasu H, Hiroaki H.

Kobe J Med Sci. 2010 Oct 21;56(3):E125-39.

38.

Structural basis of novel interactions between the small-GTPase and GDI-like domains in prokaryotic FeoB iron transporter.

Hattori M, Jin Y, Nishimasu H, Tanaka Y, Mochizuki M, Uchiumi T, Ishitani R, Ito K, Nureki O.

Structure. 2009 Oct 14;17(10):1345-55. doi: 10.1016/j.str.2009.08.007. Epub 2009 Sep 3.

39.

Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2.

Umitsu M, Nishimasu H, Noma A, Suzuki T, Ishitani R, Nureki O.

Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15616-21. doi: 10.1073/pnas.0905270106. Epub 2009 Aug 26.

40.

Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferase.

Nishimasu H, Ishitani R, Yamashita K, Iwashita C, Hirata A, Hori H, Nureki O.

Proc Natl Acad Sci U S A. 2009 May 19;106(20):8180-5. doi: 10.1073/pnas.0901330106. Epub 2009 May 5.

41.

Crystal structures of an ATP-dependent hexokinase with broad substrate specificity from the hyperthermophilic archaeon Sulfolobus tokodaii.

Nishimasu H, Fushinobu S, Shoun H, Wakagi T.

J Biol Chem. 2007 Mar 30;282(13):9923-31. Epub 2007 Jan 17.

43.

Expression of acetylcholine (ACh) and ACh-synthesizing activity in Archaea.

Yamada T, Fujii T, Kanai T, Amo T, Imanaka T, Nishimasu H, Wakagi T, Shoun H, Kamekura M, Kamagata Y, Kato T, Kawashima K.

Life Sci. 2005 Sep 2;77(16):1935-44.

PMID:
15936779
44.

The first crystal structure of the novel class of fructose-1,6-bisphosphatase present in thermophilic archaea.

Nishimasu H, Fushinobu S, Shoun H, Wakagi T.

Structure. 2004 Jun;12(6):949-59.

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