Author results

1A0A
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PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4/DNA COMPLEX
Descriptor:DNA (5'-D(*CP*TP*CP*AP*CP*AP*CP*GP*TP*GP*GP*GP*AP*CP*TP*AP*G )-3'), DNA (5'-D(*CP*TP*AP*GP*TP*CP*CP*CP*AP*CP*GP*TP*GP*TP*GP*AP*G )-3'), PROTEIN (PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4)
Authors:Shimizu, T., Toumoto, A., Ihara, K., Shimizu, M., Kyogoku, Y., Ogawa, N., Oshima, Y., Hakoshima, T.
Deposit date:1997-11-27
Release date:1998-03-18
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of PHO4 bHLH domain-DNA complex: flanking base recognition.
EMBO J., 16, 1997
1K5C
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ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM AT 0.96 A RESOLUTION
Descriptor:ENDOPOLYGALACTURONASE, N-ACETYL-D-GLUCOSAMINE, CHLORIDE ION, ...
Authors:Shimizu, T., Nakatsu, T., Miyairi, K., Okuno, T., Kato, H.
Deposit date:2001-10-10
Release date:2002-06-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (0.96 Å)
Cite:Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution.
Biochemistry, 41, 2002
1KCC
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ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM COMPLEXED WITH A GALACTURONATE AT 1.00 A RESOLUTION.
Descriptor:ENDOPOLYGALACTURONASE, Beta-D-Galactopyranuronic acid, N-ACETYL-D-GLUCOSAMINE, ...
Authors:Shimizu, T., Nakatsu, T., Miyairi, K., Okuno, T., Kato, H.
Deposit date:2001-11-08
Release date:2002-06-05
Last modified:2015-10-14
Method:X-RAY DIFFRACTION (1 Å)
Cite:Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution.
Biochemistry, 41, 2002
1KCD
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ENDOPOLYGALACTURONASE I FROM STEREUM PURPUREUM COMPLEXED WITH TWO GALACTURONATE AT 1.15 A RESOLUTION.
Descriptor:ENDOPOLYGALACTURONASE, beta-D-galactofuranuronic acid, Beta-D-Galactopyranuronic acid, ...
Authors:Shimizu, T., Nakatsu, T., Miyairi, K., Okuno, T., Kato, H.
Deposit date:2001-11-08
Release date:2002-06-05
Last modified:2015-10-14
Method:X-RAY DIFFRACTION (1.15 Å)
Cite:Active-site architecture of endopolygalacturonase I from Stereum purpureum revealed by crystal structures in native and ligand-bound forms at atomic resolution.
Biochemistry, 41, 2002
1VMO
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CRYSTAL STRUCTURE OF VITELLINE MEMBRANE OUTER LAYER PROTEIN I (VMO-I): A FOLDING MOTIF WITH HOMOLOGOUS GREEK KEY STRUCTURES RELATED BY AN INTERNAL THREE-FOLD SYMMETRY
Descriptor:VITELLINE MEMBRANE OUTER LAYER PROTEIN I
Authors:Shimizu, T., Vassylyev, D.G., Kido, S., Doi, Y., Morikawa, K.
Deposit date:1994-01-06
Release date:1994-05-31
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of vitelline membrane outer layer protein I (VMO-I): a folding motif with homologous Greek key structures related by an internal three-fold symmetry.
EMBO J., 13, 1994
5HN3
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CRYSTAL STRUCTURE OF BETA-DECARBOXYLATING DEHYDROGENASE (TK0280) FROM THERMOCOCCUS KODAKARENSIS (APO FORM)
Descriptor:Homoisocitrate dehydrogenase, IMIDAZOLE, SODIUM ION
Authors:Shimizu, T., Tomita, T., Nishiyama, M.
Deposit date:2016-01-18
Release date:2016-12-07
Last modified:2017-01-04
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structure and function of an ancestral-type beta-decarboxylating dehydrogenase from Thermococcus kodakarensis
Biochem. J., 474, 2017
5HN4
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CRYSTAL STRUCTURE OF BETA-DECARBOXYLATING DEHYDROGENASE (TK0280) FROM THERMOCOCCUS KODAKARENSIS COMPLEXED WITH MN AND HOMOISOCITRATE
Descriptor:Homoisocitrate dehydrogenase, (1R,2S)-1-hydroxybutane-1,2,4-tricarboxylic acid, MANGANESE (II) ION, ...
Authors:Shimizu, T., Tomita, T., Nishiyama, M.
Deposit date:2016-01-18
Release date:2016-12-07
Last modified:2017-01-04
Method:X-RAY DIFFRACTION (2.64 Å)
Cite:Structure and function of an ancestral-type beta-decarboxylating dehydrogenase from Thermococcus kodakarensis
Biochem. J., 474, 2017
5HN5
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CRYSTAL STRUCTURE OF BETA-DECARBOXYLATING DEHYDROGENASE (TK0280) FROM THERMOCOCCUS KODAKARENSIS COMPLEXED WITH MN AND ISOCITRATE
Descriptor:Homoisocitrate dehydrogenase, ISOCITRIC ACID, MANGANESE (II) ION, ...
Authors:Shimizu, T., Tomita, T., Nishiyama, M.
Deposit date:2016-01-18
Release date:2016-12-07
Last modified:2017-01-04
Method:X-RAY DIFFRACTION (2.55 Å)
Cite:Structure and function of an ancestral-type beta-decarboxylating dehydrogenase from Thermococcus kodakarensis
Biochem. J., 474, 2017
5HN6
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CRYSTAL STRUCTURE OF BETA-DECARBOXYLATING DEHYDROGENASE (TK0280) FROM THERMOCOCCUS KODAKARENSIS COMPLEXED WITH MN AND 3-ISOPROPYLMALATE
Descriptor:Homoisocitrate dehydrogenase, 3-ISOPROPYLMALIC ACID, MANGANESE (II) ION, ...
Authors:Shimizu, T., Tomita, T., Nishiyama, M.
Deposit date:2016-01-18
Release date:2016-12-07
Last modified:2017-01-04
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure and function of an ancestral-type beta-decarboxylating dehydrogenase from Thermococcus kodakarensis
Biochem. J., 474, 2017
1DPF
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CRYSTAL STRUCTURE OF A MG-FREE FORM OF RHOA COMPLEXED WITH GDP
Descriptor:RHOA, GUANOSINE-5'-DIPHOSPHATE
Authors:Shimizu, T., Ihara, K., Maesaki, R., Kuroda, S., Kaibuchi, K., Hakoshima, T.
Deposit date:1999-12-27
Release date:2000-06-21
Last modified:2018-03-14
Method:X-RAY DIFFRACTION (2 Å)
Cite:An open conformation of switch I revealed by the crystal structure of a Mg2+-free form of RHOA complexed with GDP. Implications for the GDP/GTP exchange mechanism.
J.Biol.Chem., 275, 2000
1ISN
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CRYSTAL STRUCTURE OF MERLIN FERM DOMAIN
Descriptor:merlin
Authors:Shimizu, T., Seto, A., Maita, N., Hamada, K., Tsukita, S., Tsukita, S., Hakoshima, T.
Deposit date:2001-12-13
Release date:2002-04-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structural basis for neurofibromatosis type 2. Crystal structure of the merlin FERM domain.
J.Biol.Chem., 277, 2002
1UIX
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COILED-COIL STRUCTURE OF THE RHOA-BINDING DOMAIN IN RHO-KINASE
Descriptor:Rho-associated kinase
Authors:Shimizu, T., Ihara, K., Maesaki, R., Amano, M., Kaibuchi, K., Hakoshima, T.
Deposit date:2003-07-23
Release date:2003-10-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Parallel coiled-coil association of the RhoA-binding domain in Rho-kinase
J.Biol.Chem., 278, 2003
5EIN
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CRYSTAL STRUCTURE OF C148A MUTANT OF LYSY FROM THERMUS THERMOPHILUS IN COMPLEX WITH NADP+ AND LYSW-GAMMA-AMINOADIPIC ACID
Descriptor:N-acetyl-gamma-glutamyl-phosphate/N-acetyl-gamma-aminoadipyl-phosphate reductase, OrfF, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ...
Authors:Shimizu, T., Tomita, T., Nishiyama, M.
Deposit date:2015-10-30
Release date:2016-03-23
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal Structure of the LysYLysW Complex from Thermus thermophilus.
J.Biol.Chem., 291, 2016
5EIO
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CRYSTAL STRUCTURE OF LYSY FROM THERMUS THERMOPHILUS COMPLEXED WITH NADP+ AND LYSW-GAMMA-AMINOADIPIC SEMIALDEHYDE
Descriptor:N-acetyl-gamma-glutamyl-phosphate/N-acetyl-gamma-aminoadipyl-phosphate reductase, OrfF, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ...
Authors:Shimizu, T., Tomita, T., Nishiyama, M.
Deposit date:2015-10-30
Release date:2016-03-23
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal Structure of the LysYLysW Complex from Thermus thermophilus.
J.Biol.Chem., 291, 2016
3W0G
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CRYSTAL STRUCTURE OF RAT VDR LIGAND BINDING DOMAIN IN COMPLEX WITH NOVEL NONSECOSTEROIDAL LIGANDS
Descriptor:Vitamin D3 receptor, Mediator of RNA polymerase II transcription subunit 1, (2S)-3-{4-[2-(4-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}phenyl)propan-2-yl]phenoxy}propane-1,2-diol
Authors:Shimizu, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.
Deposit date:2012-10-30
Release date:2013-10-09
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.94 Å)
Cite:Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands.
Febs Lett., 587, 2013
3W0H
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CRYSTAL STRUCTURE OF RAT VDR LIGAND BINDING DOMAIN IN COMPLEX WITH NOVEL NONSECOSTEROIDAL LIGANDS
Descriptor:Vitamin D3 receptor, Mediator of RNA polymerase II transcription subunit 1, (2S)-3-{4-[4-(4-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}phenyl)heptan-4-yl]phenoxy}propane-1,2-diol
Authors:Shimizu, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.
Deposit date:2012-10-30
Release date:2013-10-09
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands.
Febs Lett., 587, 2013
3W0I
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CRYSTAL STRUCTURE OF RAT VDR LIGAND BINDING DOMAIN IN COMPLEX WITH NOVEL NONSECOSTEROIDAL LIGANDS
Descriptor:Vitamin D3 Receptor, Mediator of RNA polymerase II transcription subunit 1, (2S)-3-{4-[3-(4-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}phenyl)pentan-3-yl]phenoxy}propane-1,2-diol
Authors:Shimizu, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.
Deposit date:2012-10-30
Release date:2013-10-09
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands.
Febs Lett., 587, 2013
3W0J
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CRYSTAL STRUCTURE OF RAT VDR LIGAND BINDING DOMAIN IN COMPLEX WITH NOVEL NONSECOSTEROIDAL LIGANDS
Descriptor:Vitamin D3 Receptor, Mediator of RNA polymerase II transcription subunit 1, (2S)-3-{4-[2-(4-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}-3-methylphenyl)propan-2-yl]-2-methylphenoxy}propane-1,2-diol
Authors:Shimizu, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.
Deposit date:2012-10-30
Release date:2013-10-09
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (1.84 Å)
Cite:Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands.
Febs Lett., 587, 2013
5GIC
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CRYSTAL STRUCTURE OF VDR IN COMPLEX WITH DLAM-2P
Descriptor:Vitamin D3 receptor, SRC1, (3R,5S)-5-{(2R,3R)-3-[(1R,2S,3Z)-3-{(2E)-2-[(3S,5R)-3,5-dihydroxy-2-methylidenecyclohexylidene]ethylidene}-1,2-dimethylcyclohexyl]-2-methylbutyl}-3-hydroxy-3-methyl-1-(2-phenylethyl)pyrrolidin-2-one
Authors:Shimizu, T., Asano, L.
Deposit date:2016-06-23
Release date:2016-12-07
Method:X-RAY DIFFRACTION (2.352 Å)
Cite:Regulation of the vitamin D receptor by vitamin D lactam derivatives.
Febs Lett., 590, 2016
3B0R
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HUMAN PPAR GAMMA LIGAND BINDING DMAIN COMPLEXED WITH GW9662 IN A COVALENT BONDED FORM
Descriptor:Peroxisome proliferator-activated receptor gamma, 2-chloro-5-nitro-N-phenylbenzamide
Authors:Tomioka, D., Hashimoto, H., Sato, M., Shimizu, T.
Deposit date:2011-06-13
Release date:2011-08-10
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Human PPAR gamma ligand binding dmain complexed with GW9662 in a covalent bonded form
To be published
3B0T
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HUMAN VDR LIGAND BINDING DOMAIN IN COMPLEX WITH MAXACALCITOL
Descriptor:Vitamin D3 receptor, (1S,3R,5Z,7E,14beta,17alpha,20S)-20-(3-hydroxy-3-methylbutoxy)-9,10-secopregna-5,7,10-triene-1,3-diol, SULFATE ION
Authors:Hishiki, A., Hashimoto, H., Sato, M., Shimizu, T.
Deposit date:2011-06-14
Release date:2011-08-10
Last modified:2017-08-09
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Human VDR ligand binding domain in complex with maxacalcitol
To be Published
5ZSA
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CRYSTAL STRUCTURE OF MONKEY TLR7 IN COMPLEX WITH IMDQ AND UUUUUU
Descriptor:Toll-like receptor 7, RNA (5'-R(P*UP*UP*UP*U)-3'), N-ACETYL-D-GLUCOSAMINE, ...
Authors:Zhang, Z., Ohto, U., Shimizu, T.
Deposit date:2018-04-28
Release date:2019-01-30
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:To be published
To Be Published
5ZSB
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CRYSTAL STRUCTURE OF MONKEY TLR7 IN COMPLEX WITH IMDQ AND AAUUAA
Descriptor:Toll-like receptor 7, RNA (5'-R(*AP*UP*UP*AP*A)-3'), N-ACETYL-D-GLUCOSAMINE, ...
Authors:Zhang, Z., Ohto, U., Shimizu, T.
Deposit date:2018-04-28
Release date:2019-01-30
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:To be published
To Be Published
5ZSC
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CRYSTAL STRUCTURE OF MONKEY TLR7 IN COMPLEX WITH IMDQ AND CCUUCC
Descriptor:Toll-like receptor 7, RNA (5'-R(P*UP*UP*CP*A)-3'), N-ACETYL-D-GLUCOSAMINE, ...
Authors:Zhang, Z., Ohto, U., Shimizu, T.
Deposit date:2018-04-28
Release date:2019-01-30
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:To be published
To Be Published
5ZSD
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CRYSTAL STRUCTURE OF MONKEY TLR7 IN COMPLEX WITH IMDQ AND GGUUGG
Descriptor:Toll-like receptor 7, RNA (5'-R(P*UP*UP*GP*A)-3'), N-ACETYL-D-GLUCOSAMINE, ...
Authors:Zhang, Z., Ohto, U., Shimizu, T.
Deposit date:2018-04-28
Release date:2019-01-30
Method:X-RAY DIFFRACTION (2.603 Å)
Cite:To be published
To Be Published