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4YO0
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BU of 4yo0 by Molmil
Crystal structure of monoclonal anti-human podoplanin antibody NZ-1 with bound PA peptide
Descriptor: 1,2-ETHANEDIOL, Heavy chain of antigen binding fragment, Fab, ...
Authors:Fujii, Y, Kitago, Y, Arimori, T, Takagi, J.
Deposit date:2015-03-11
Release date:2016-03-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.56 Å)
Cite:Tailored placement of a turn-forming PA tag into the structured domain of a protein to probe its conformational state
J.Cell.Sci., 129, 2016
4YNY
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BU of 4yny by Molmil
Crystal structure of monoclonal anti-human podoplanin antibody NZ-1
Descriptor: Heavy chain of antigen binding fragment, Fab, Light chain of antigen binding fragment
Authors:Fujii, Y, Kitago, Y, Arimori, T, Takagi, J.
Deposit date:2015-03-11
Release date:2016-03-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.584 Å)
Cite:Tailored placement of a turn-forming PA tag into the structured domain of a protein to probe its conformational state
J.Cell.Sci., 129, 2016
1GD2
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BU of 1gd2 by Molmil
CRYSTAL STRUCTURE OF BZIP TRANSCRIPTION FACTOR PAP1 BOUND TO DNA
Descriptor: DNA (5'-D(*AP*GP*GP*TP*TP*AP*CP*GP*TP*AP*AP*CP*C)-3'), TRANSCRIPTION FACTOR PAP1
Authors:Fujii, Y, Shimizu, T, Toda, T, Yanagida, M, Hakoshima, T.
Deposit date:2000-08-25
Release date:2000-10-02
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural basis for the diversity of DNA recognition by bZIP transcription factors.
Nat.Struct.Biol., 7, 2000
2IRF
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BU of 2irf by Molmil
CRYSTAL STRUCTURE OF AN IRF-2/DNA COMPLEX.
Descriptor: DNA (5'-D(*TP*TP*CP*AP*CP*TP*TP*TP*CP*AP*CP*(5IU)P*T)-3'), DNA (5'-D(P*AP*AP*GP*TP*GP*AP*AP*AP*GP*(5IU)P*GP*A)-3'), INTERFERON REGULATORY FACTOR 2, ...
Authors:Fujii, Y, Shimizu, T, Kusumoto, M, Kyogoku, Y, Taniguchi, T, Hakoshima, T.
Deposit date:1999-05-30
Release date:1999-10-08
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of an IRF-DNA complex reveals novel DNA recognition and cooperative binding to a tandem repeat of core sequences.
EMBO J., 18, 1999
1J2L
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BU of 1j2l by Molmil
Crystal structure of the disintegrin, trimestatin
Descriptor: Disintegrin triflavin, SULFATE ION
Authors:Fujii, Y, Okuda, D, Fujimoto, Z, Morita, T, Mizuno, H.
Deposit date:2003-01-06
Release date:2003-10-07
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal Structure of Trimestatin, a Disintegrin Containing a Cell Adhesion Recognition Motif RGD
J.Mol.Biol., 332, 2003
5B2J
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BU of 5b2j by Molmil
Human nucleosome containing CpG methylated DNA
Descriptor: DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Fujii, Y, Wakamori, M, Umehara, T, Yokoyama, S.
Deposit date:2016-01-18
Release date:2016-06-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation.
Febs Open Bio, 6, 2016
5B2I
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BU of 5b2i by Molmil
Human nucleosome containing CpG unmethylated DNA
Descriptor: DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Fujii, Y, Wakamori, M, Umehara, T, Yokoyama, S.
Deposit date:2016-01-16
Release date:2016-06-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3 Å)
Cite:Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation.
Febs Open Bio, 6, 2016
3WHE
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BU of 3whe by Molmil
A new conserved neutralizing epitope at the globular head of hemagglutinin in H3N2 influenza viruses
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Hemagglutinin, alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ...
Authors:Fujii, Y, Sumida, T, Shirouzu, M, Yokoyama, S.
Deposit date:2013-08-25
Release date:2014-04-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (4 Å)
Cite:Conserved neutralizing epitope at globular head of hemagglutinin in H3N2 influenza viruses.
J.Virol., 88, 2014
2Z36
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BU of 2z36 by Molmil
Crystal structure of cytochrome P450 MoxA from Nonomuraea recticatena (CYP105)
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Cytochrome P450 type compactin 3'',4''-hydroxylase, FE (III) ION, ...
Authors:Yasutake, Y, Fujii, Y, Fujii, T, Arisawa, A, Tamura, T.
Deposit date:2007-06-02
Release date:2007-08-21
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of cytochrome P450 MoxA from Nonomuraea recticatena (CYP105)
Biochem.Biophys.Res.Commun., 361, 2007
5GZT
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BU of 5gzt by Molmil
Crystal Structure of Chitinase ChiW from Paenibacillus sp. str. FPU-7 Reveals a Novel Type of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
Descriptor: Chitinase, FORMIC ACID, PHOSPHATE ION, ...
Authors:Itoh, T, Hibi, T, Suzuki, F, Sugimoto, I, Fujiwara, A, Inaka, K, Tanaka, H, Ohta, K, Fujii, Y, Taketo, A, Kimoto, H.
Deposit date:2016-10-01
Release date:2016-12-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal Structure of Chitinase ChiW from Paenibacillus sp. str. FPU-7 Reveals a Novel Type of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
PLoS ONE, 11, 2016
5GZU
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BU of 5gzu by Molmil
Crystal Structure of Chitinase ChiW from Paenibacillus sp. str. FPU-7 Reveals a Novel Type of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
Descriptor: Chitinase, PHOSPHATE ION
Authors:Itoh, T, Hibi, T, Suzuki, F, Sugimoto, I, Fujiwara, A, Inaka, K, Tanaka, H, Ohta, K, Fujii, Y, Taketo, A, Kimoto, H.
Deposit date:2016-10-01
Release date:2016-12-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.03 Å)
Cite:Crystal Structure of Chitinase ChiW from Paenibacillus sp. str. FPU-7 Reveals a Novel Type of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
PLoS ONE, 11, 2016
5GZV
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BU of 5gzv by Molmil
Crystal Structure of Chitinase ChiW from Paenibacillus sp. str. FPU-7 Reveals a Novel Type of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Chitinase, PHOSPHATE ION
Authors:Itoh, T, Hibi, T, Suzuki, F, Sugimoto, I, Fujiwara, A, Inaka, K, Tanaka, H, Ohta, K, Fujii, Y, Taketo, A, Kimoto, H.
Deposit date:2016-10-01
Release date:2016-12-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.61 Å)
Cite:Crystal Structure of Chitinase ChiW from Paenibacillus sp. str. FPU-7 Reveals a Novel Type of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
PLoS ONE, 11, 2016
5H45
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BU of 5h45 by Molmil
Crystal structure of the C-terminal Lon protease-like domain of Thermus thermophilus RadA/Sms
Descriptor: DNA repair protein RadA
Authors:Inoue, M, Fukui, K, Fujii, Y, Nakagawa, N, Yano, T, Kuramitsu, S, Masui, R.
Deposit date:2016-10-30
Release date:2017-05-03
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:The Lon protease-like domain in the bacterial RecA paralog RadA is required for DNA binding and repair.
J. Biol. Chem., 292, 2017
3A4H
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BU of 3a4h by Molmil
Structure of cytochrome P450 vdh from Pseudonocardia autotrophica (orthorhombic crystal form)
Descriptor: CALCIUM ION, PROTOPORPHYRIN IX CONTAINING FE, Vitamin D hydroxylase
Authors:Yasutake, Y, Fujii, Y, Cheon, W.K, Arisawa, A, Tamura, T.
Deposit date:2009-07-07
Release date:2010-07-14
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (3.06 Å)
Cite:Structural evidence for enhancement of sequential vitamin D3 hydroxylation activities by directed evolution of cytochrome P450 vitamin D3 hydroxylase
J.Biol.Chem., 285, 2010
3A51
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BU of 3a51 by Molmil
Structure of cytochrome P450 Vdh mutant (Vdh-K1) obtained by directed evolution with bound 25-hydroxyvitamin D3
Descriptor: 3-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANOL, ACETATE ION, CALCIUM ION, ...
Authors:Yasutake, Y, Fujii, Y, Cheon, W.K, Arisawa, A, Tamura, T.
Deposit date:2009-07-24
Release date:2010-07-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural evidence for enhancement of sequential vitamin D3 hydroxylation activities by directed evolution of cytochrome P450 vitamin D3 hydroxylase
J.Biol.Chem., 285, 2010
3A4G
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BU of 3a4g by Molmil
Structure of cytochrome P450 vdh from Pseudonocardia autotrophica (trigonal crystal form)
Descriptor: 2-(2-METHOXYETHOXY)ETHANOL, PROTOPORPHYRIN IX CONTAINING FE, Vitamin D hydroxylase
Authors:Yasutake, Y, Fujii, Y, Cheon, W.K, Arisawa, A, Tamura, T.
Deposit date:2009-07-07
Release date:2010-07-14
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Structural evidence for enhancement of sequential vitamin D3 hydroxylation activities by directed evolution of cytochrome P450 vitamin D3 hydroxylase
J.Biol.Chem., 285, 2010
3A4Z
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BU of 3a4z by Molmil
Structure of cytochrome P450 Vdh mutant (Vdh-K1) obtained by directed evolution
Descriptor: ACETATE ION, CALCIUM ION, GLYCEROL, ...
Authors:Yasutake, Y, Fujii, Y, Cheon, W.K, Arisawa, A, Tamura, T.
Deposit date:2009-07-24
Release date:2010-07-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural evidence for enhancement of sequential vitamin D3 hydroxylation activities by directed evolution of cytochrome P450 vitamin D3 hydroxylase
J.Biol.Chem., 285, 2010
3A50
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BU of 3a50 by Molmil
Structure of cytochrome P450 Vdh mutant (Vdh-K1) obtained by directed evolution with bound vitamin D3
Descriptor: (1S,3Z)-3-[(2E)-2-[(1R,3AR,7AS)-7A-METHYL-1-[(2R)-6-METHYLHEPTAN-2-YL]-2,3,3A,5,6,7-HEXAHYDRO-1H-INDEN-4-YLIDENE]ETHYLI DENE]-4-METHYLIDENE-CYCLOHEXAN-1-OL, ACETATE ION, CALCIUM ION, ...
Authors:Yasutake, Y, Fujii, Y, Cheon, W.K, Arisawa, A, Tamura, T.
Deposit date:2009-07-24
Release date:2010-07-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structural evidence for enhancement of sequential vitamin D3 hydroxylation activities by directed evolution of cytochrome P450 vitamin D3 hydroxylase
J.Biol.Chem., 285, 2010
5AV9
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BU of 5av9 by Molmil
human nucleosome core particle
Descriptor: DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S.
Deposit date:2015-06-12
Release date:2015-12-23
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
5AV8
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BU of 5av8 by Molmil
human nucleosome core particle
Descriptor: DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S.
Deposit date:2015-06-12
Release date:2015-12-23
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
5AV5
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BU of 5av5 by Molmil
human nucleosome core particle
Descriptor: DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S.
Deposit date:2015-06-11
Release date:2015-12-23
Last modified:2020-02-19
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
5AVC
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BU of 5avc by Molmil
human nucleosome core particle
Descriptor: DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S.
Deposit date:2015-06-12
Release date:2015-12-23
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
5AV6
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BU of 5av6 by Molmil
human nucleosome core particle
Descriptor: DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S.
Deposit date:2015-06-12
Release date:2015-12-23
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
5AVB
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BU of 5avb by Molmil
human nucleosome core particle
Descriptor: DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ...
Authors:Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S.
Deposit date:2015-06-12
Release date:2015-12-23
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
6KS0
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BU of 6ks0 by Molmil
Crystal structure of the human adiponectin receptor 1
Descriptor: Adiponectin receptor protein 1, PHOSPHATE ION, The heavy chain variable domain (Antibody), ...
Authors:Tanabe, H, Fujii, Y, Nakamura, Y, Hosaka, T, Okada-Iwabu, M, Iwabu, M, Kimura-Someya, T, Shirouzu, M, Yamauchi, T, Kadowaki, T, Yokoyama, S.
Deposit date:2019-08-22
Release date:2020-08-19
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.79 Å)
Cite:Human adiponectin receptor AdipoR1 assumes closed and open structures.
Commun Biol, 3, 2020

 

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