Author results

2RRC
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SOLUTION STRUCTURE OF RNA APTAMER AGAINST AML1 RUNT DOMAIN
Descriptor:5'-R(P*GP*GP*AP*CP*CP*CP*(AP7)P*CP*CP*AP*CP*GP*GP*CP*GP*AP*GP*GP*UP*CP*CP*A)-3'
Authors:Nomura, Y., Fujiwara, K., Chiba, M., Fukunaga, J., Tanaka, Y., Iibuchi, H., Tanaka, T., Nakamura, Y., Kawai, G., Kozu, T., Sakamoto, T.
Deposit date:2010-06-23
Release date:2011-06-29
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:A novel high affinity RNA motif that mimics DNA in AML1 Runt domain binding
To be Published
3AGV
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CRYSTAL STRUCTURE OF A HUMAN IGG-APTAMER COMPLEX
Descriptor:Ig gamma-1 chain C region, 5'-R(*GP*GP*AP*GP*GP*(UFT)P*GP*(CFZ)P*(UFT)P*(CFZ)P*(CFZ)P*GP*AP*AP*A*GP*GP*AP*AP*(CFZ)P*(UFT)P*(CFZ)P*(CFZ)P*A)-3', ALPHA-D-MANNOSE, ...
Authors:Nomura, Y., Sugiyama, S., Sakamoto, T., Miyakawa, S., Adachi, H., Takano, K., Murakami, S., Inoue, T., Mori, Y., Nakamura, Y., Matsumura, H.
Deposit date:2010-04-08
Release date:2010-11-10
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Conformational plasticity of RNA for target recognition as revealed by the 2.15 A crystal structure of a human IgG-aptamer complex
Nucleic Acids Res., 38, 2010
2FDT
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SOLUTION STRUCTURE OF A CONSERVED RNA HAIRPIN OF EEL LINE UNAL2
Descriptor:36-mer
Authors:Nomura, Y., Baba, S., Nakazato, S., Sakamoto, T., Kajikawa, M., Okada, N., Kawai, G.
Deposit date:2005-12-14
Release date:2006-12-05
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Solution structure and functional importance of a conserved RNA hairpin of eel LINE UnaL2
Nucleic Acids Res., 34, 2006
6D2Z
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STRUCTURE OF HUMAN USB1 WITH URIDINE-ADENOSINE, INACTIVE H208Q MUTANT
Descriptor:U6 snRNA phosphodiesterase, 5'-R(UP*A)-3'), CHLORIDE ION
Authors:Nomura, Y., Montemayor, E.J., Butcher, S.E.
Deposit date:2018-04-14
Release date:2018-09-05
Last modified:2018-12-12
Method:X-RAY DIFFRACTION (1.18 Å)
Cite:Structural and mechanistic basis for preferential deadenylation of U6 snRNA by Usb1.
Nucleic Acids Res., 46, 2018
6D30
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STRUCTURE OF HUMAN USB1 WITH URIDINE-URIDINE, INACTIVE H208Q MUTANT
Descriptor:U6 snRNA phosphodiesterase, RNA (5'-R(UP*U)-3'), CHLORIDE ION
Authors:Nomura, Y., Montemayor, E.J., Butcher, S.E.
Deposit date:2018-04-14
Release date:2018-09-05
Last modified:2018-12-12
Method:X-RAY DIFFRACTION (1.17 Å)
Cite:Structural and mechanistic basis for preferential deadenylation of U6 snRNA by Usb1.
Nucleic Acids Res., 46, 2018
6D31
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STRUCTURE OF HUMAN USB1 WITH ADENOSINE 5'-MONOPHOSPHATE
Descriptor:U6 snRNA phosphodiesterase, ADENOSINE-5'-MONOPHOSPHATE, CHLORIDE ION, ...
Authors:Nomura, Y., Montemayor, E.J., Butcher, S.E.
Deposit date:2018-04-14
Release date:2018-09-05
Last modified:2018-12-12
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Structural and mechanistic basis for preferential deadenylation of U6 snRNA by Usb1.
Nucleic Acids Res., 46, 2018
5YOY
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CRYSTAL STRUCTURE OF THE HUMAN TUMOR NECROSIS FACTOR IN COMPLEX WITH GOLIMUMAB FV
Descriptor:Tumor necrosis factor, Golimumab light chain variable region, Golimumab heavy chain variable region
Authors:Ono, M., Horita, S., Sato, Y., Nomura, Y., Iwata, S., Nomura, N.
Deposit date:2017-10-31
Release date:2018-05-09
Last modified:2018-11-14
Method:X-RAY DIFFRACTION (2.727 Å)
Cite:Structural basis for tumor necrosis factor blockade with the therapeutic antibody golimumab
Protein Sci., 27, 2018
3E54
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ARCHAEAL INTRON-ENCODED HOMING ENDONUCLEASE I-VDI141I COMPLEXED WITH DNA
Descriptor:RRNA intron-encoded endonuclease, DNA (5'-D(*DCP*DTP*DGP*DAP*DCP*DTP*DCP*DTP*DCP*DTP*DTP*DAP*DA)-3'), DNA (5'-D(P*DGP*DGP*DTP*DAP*DGP*DCP*DCP*DAP*DA)-3'), ...
Authors:Nomura, N., Nomura, Y., Sussman, D., Stoddard, B.L.
Deposit date:2008-08-13
Release date:2008-12-30
Last modified:2014-03-12
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Recognition of a common rDNA target site in archaea and eukarya by analogous LAGLIDADG and His-Cys box homing endonucleases
Nucleic Acids Res., 36, 2008
4U6K
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CRYSTAL STRUCTURE OF DNA/RNA DUPLEX CONTAINING 2'-4'-BNA-NC
Descriptor:RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3'), DNA (5'-D(*(NCU)P*(NTT)P*CP*TP*TP*CP*TP*(NTT)P*(NCU))-3'), COBALT HEXAMMINE(III)
Authors:Kondo, J., Nomura, Y., Kitahara, Y., Obika, S., Torigoe, H.
Deposit date:2014-07-29
Release date:2015-08-19
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Crystal structure of DNA/RNA duplex containing 2',4'-BNA-NC
To Be Published
4U6L
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CRYSTAL STRUCTURE OF DNA/RNA DUPLEX OBTAINED IN THE PRESENCE OF [CO(NH3)6]CL3 AND SRCL2
Descriptor:RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3'), DNA (5'-D(*(5CM)P*TP*CP*TP*TP*CP*TP*TP*(5CM))-3'), COBALT HEXAMMINE(III), ...
Authors:Kondo, J., Nomura, Y., Kitahara, Y., Obika, S., Torigoe, H.
Deposit date:2014-07-29
Release date:2015-08-19
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of DNA/RNA duplex obtained in the presence of [Co(NH3)6]Cl3 and SrCl2
To Be Published
4U6M
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CRYSTAL STRUCTURE OF DNA/RNA DUPLEX OBTAINED IN THE PRESENCE OF SPERMINE
Descriptor:RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3'), DNA (5'-D(*(5CM)P*TP*CP*TP*TP*CP*TP*TP*(5CM))-3')
Authors:Kondo, J., Nomura, Y., Kitahara, Y., Obika, S., Torigoe, H.
Deposit date:2014-07-29
Release date:2015-08-19
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of DNA/RNA duplex obtained in the presence of Spermine
To Be Published
4YBQ
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RAT GLUT5 WITH FV IN THE OUTWARD-OPEN FORM
Descriptor:Solute carrier family 2, facilitated glucose transporter member 5, antibody Fv fragment light chain, ...
Authors:Nomura, N., Shimamura, T., Iwata, S.
Deposit date:2015-02-19
Release date:2015-10-07
Last modified:2015-10-28
Method:X-RAY DIFFRACTION (3.27 Å)
Cite:Structure and mechanism of the mammalian fructose transporter GLUT5
Nature, 526, 2015
6A93
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CRYSTAL STRUCTURE OF 5-HT2AR IN COMPLEX WITH RISPERIDONE
Descriptor:5-hydroxytryptamine receptor 2A,Soluble cytochrome b562, 3-[2-[4-(6-fluoranyl-1,2-benzoxazol-3-yl)piperidin-1-yl]ethyl]-2-methyl-6,7,8,9-tetrahydropyrido[1,2-a]pyrimidin-4-one, CHOLESTEROL, ...
Authors:Kimura, T.K., Asada, H., Inoue, A., Kadji, F.M.N., Im, D., Mori, C., Arakawa, T., Hirata, K., Nomura, Y., Nomura, N., Aoki, J., Iwata, S., Shimamura, T.
Deposit date:2018-07-11
Release date:2019-02-13
Method:X-RAY DIFFRACTION (3 Å)
Cite:Structures of the 5-HT2A receptor in complex with the antipsychotics risperidone and zotepin
Nat.Struct.Mol.Biol., 26, 2019
6A94
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CRYSTAL STRUCTURE OF 5-HT2AR IN COMPLEX WITH ZOTEPINE
Descriptor:5-hydroxytryptamine receptor 2A,Soluble cytochrome b562, 2-(3-chloranylbenzo[b][1]benzothiepin-5-yl)oxy-N,N-dimethyl-ethanamine, CHOLESTEROL, ...
Authors:Kimura, T.K., Asada, H., Inoue, A., Kadji, F.M.N., Im, D., Mori, C., Arakawa, T., Hirata, K., Nomura, Y., Nomura, N., Aoki, J., Iwata, S., Shimamura, T.
Deposit date:2018-07-11
Release date:2019-02-13
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structures of the 5-HT2A receptor in complex with the antipsychotics risperidone and zotepin
Nat.Struct.Mol.Biol., 26, 2019
5B8C
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HIGH RESOLUTION STRUCTURE OF THE HUMAN PD-1 IN COMPLEX WITH PEMBROLIZUMAB FV
Descriptor:Pembrolizumab light chain variable region (PemVL), Pembrolizumab heavy chain variable region (PemVH), Programmed cell death protein 1
Authors:Horita, S., Shimamura, T., Iwata, S., Nomura, N.
Deposit date:2016-06-14
Release date:2016-10-26
Last modified:2017-10-18
Method:X-RAY DIFFRACTION (2.146 Å)
Cite:High-resolution crystal structure of the therapeutic antibody pembrolizumab bound to the human PD-1
Sci Rep, 6, 2016
4YB9
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CRYSTAL STRUCTURE OF THE BOVINE FRUCTOSE TRANSPORTER GLUT5 IN AN OPEN INWARD-FACING CONFORMATION
Descriptor:Solute carrier family 2, facilitated glucose transporter member 5
Authors:Verdon, G., Kang, H.J., Iwata, S., Drew, D.
Deposit date:2015-02-18
Release date:2015-10-14
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structure and mechanism of the mammalian fructose transporter GLUT5.
Nature, 526, 2015
5AYG
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CRYSTAL STRUCTURE OF THE HUMAN ROR GAMMA LIGAND BINDING DOMAIN WITH 3G
Descriptor:Nuclear receptor ROR-gamma, 3-[5-(2-cyclohexylethyl)-4-ethyl-1,2,4-triazol-3-yl]-N-naphthalen-1-yl-propanamide
Authors:Noguchi, M., Doi, S., Nomura, A., Kikuwaka, M., Murase, K., Hirata, K., Kamada, M., Adachi, T.
Deposit date:2015-08-20
Release date:2016-03-02
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:SAR Exploration Guided by LE and Fsp(3): Discovery of a Selective and Orally Efficacious ROR gamma Inhibitor
Acs Med.Chem.Lett., 7, 2016
5X2M
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CRYSTAL STRUCTURE OF THE MEDAKA FISH TASTE RECEPTOR T1R2A-T1R3 LIGAND BINDING DOMAINS IN COMPLEX WITH L-GLUTAMINE
Descriptor:Taste receptor, type 1, member 2a, ...
Authors:Nuemket, N., Yasui, N., Atsumi, N., Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2017-06-21
Method:X-RAY DIFFRACTION (2.206 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2N
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CRYSTAL STRUCTURE OF THE MEDAKA FISH TASTE RECEPTOR T1R2A-T1R3 LIGAND BINDING DOMAINS IN COMPLEX WITH L-ALANINE
Descriptor:Taste receptor, type 1, member 2a, ...
Authors:Nuemket, N., Yasui, N., Atsumi, N., Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2017-06-21
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2O
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CRYSTAL STRUCTURE OF THE MEDAKA FISH TASTE RECEPTOR T1R2A-T1R3 LIGAND BINDING DOMAINS IN COMPLEX WITH L-ARGININE
Descriptor:Taste receptor, type 1, member 2a, ...
Authors:Nuemket, N., Yasui, N., Atsumi, N., Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2017-06-21
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2P
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CRYSTAL STRUCTURE OF THE MEDAKA FISH TASTE RECEPTOR T1R2A-T1R3 LIGAND BINDING DOMAINS IN COMPLEX WITH L-GLUTAMATE
Descriptor:Taste receptor, type 1, member 2a, ...
Authors:Nuemket, N., Yasui, N., Atsumi, N., Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2017-06-21
Method:X-RAY DIFFRACTION (2.608 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017
5X2Q
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CRYSTAL STRUCTURE OF THE MEDAKA FISH TASTE RECEPTOR T1R2A-T1R3 LIGAND BINDING DOMAINS IN COMPLEX WITH GLYCINE
Descriptor:Taste receptor, type 1, member 2a, ...
Authors:Nuemket, N., Yasui, N., Atsumi, N., Yamashita, A.
Deposit date:2017-02-02
Release date:2017-05-24
Last modified:2017-06-21
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for perception of diverse chemical substances by T1r taste receptors
Nat Commun, 8, 2017