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6JNR
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BU of 6jnr by Molmil
RXRa structure complexed with CU-6PMN and SRC1 peptide.
Descriptor: 7-oxidanyl-2-oxidanylidene-6-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)chromene-3-carboxylic acid, HIS-LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN, Retinoic acid receptor RXR-alpha
Authors:Kawasaki, M, Nakano, S, Motoyama, T, Yamada, S, Watanabe, M, Takamura, Y, Fujihara, M, Tokiwa, H, Kakuta, H, Ito, S.
Deposit date:2019-03-18
Release date:2020-03-25
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:RXRa structure complexed with CU-6PMN and SRC1 peptide.
To Be Published
1WR6
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BU of 1wr6 by Molmil
Crystal structure of GGA3 GAT domain in complex with ubiquitin
Descriptor: ADP-ribosylation factor binding protein GGA3, ubiquitin
Authors:Kawasaki, M, Shiba, T, Shiba, Y, Yamaguchi, Y, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Kato, K, Nakayama, K, Wakatsuki, S.
Deposit date:2004-10-12
Release date:2005-06-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Molecular mechanism of ubiquitin recognition by GGA3 GAT domain.
Genes Cells, 10, 2005
6L96
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BU of 6l96 by Molmil
Structure of PPARalpha-LBD/pemafibrate/SRC1 peptide
Descriptor: (2~{R})-2-[3-[[1,3-benzoxazol-2-yl-[3-(4-methoxyphenoxy)propyl]amino]methyl]phenoxy]butanoic acid, Peroxisome proliferator-activated receptor alpha, SRC1 coactivator peptide
Authors:Kawasaki, M, Kambe, A, Yamamoto, Y, Arulmozhira, S, Ito, S, Nakagawa, Y, Tokiwa, H, Nakano, S, Shimano, H.
Deposit date:2019-11-08
Release date:2020-01-15
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Elucidation of Molecular Mechanism of a Selective PPAR alpha Modulator, Pemafibrate, through Combinational Approaches of X-ray Crystallography, Thermodynamic Analysis, and First-Principle Calculations.
Int J Mol Sci, 21, 2020
1IO6
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BU of 1io6 by Molmil
GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 (GRB2) C-TERMINAL SH3 DOMAIN COMPLEXED WITH A LIGAND PEPTIDE (NMR, MINIMIZED MEAN STRUCTURE)
Descriptor: A LIGAND PEPTIDE, GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2
Authors:Kawasaki, M, Ogura, K, Hatanaka, H, Inagaki, F.
Deposit date:2001-01-25
Release date:2001-02-14
Last modified:2023-12-27
Method:SOLUTION NMR
Cite:Solution Structure of the C-Terminal SH3 Domain of Grb2 Complexed with a Ligand Peptide: A Ligand Exchange Model of the SH3 Domain
To be Published
6JNO
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BU of 6jno by Molmil
RXRa structure complexed with CU-6PMN
Descriptor: 7-oxidanyl-2-oxidanylidene-6-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)chromene-3-carboxylic acid, Retinoic acid receptor RXR-alpha
Authors:Kawasaki, M, Nakano, S, Motoyama, T, Yamada, S, Watanabe, M, Takamura, Y, Fujihara, M, Tokiwa, H, Kakuta, H, Ito, S.
Deposit date:2019-03-17
Release date:2019-11-20
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Competitive Binding Assay with an Umbelliferone-Based Fluorescent Rexinoid for Retinoid X Receptor Ligand Screening.
J.Med.Chem., 62, 2019
7WAC
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BU of 7wac by Molmil
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1)
Descriptor: Cyanophycin synthase
Authors:Kawasaki, M, Miyakawa, T, Yang, J, Adachi, N, Fujii, A, Miyauchi, Y, Muramatsu, T, Moriya, T, Senda, T, Tanokura, M.
Deposit date:2021-12-14
Release date:2022-09-07
Last modified:2022-09-14
Method:ELECTRON MICROSCOPY (2.91 Å)
Cite:Structural bases for aspartate recognition and polymerization efficiency of cyanobacterial cyanophycin synthetase.
Nat Commun, 13, 2022
7WAD
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BU of 7wad by Molmil
Trichodesmium erythraeum cyanophycin synthetase 1 (TeCphA1) with ATPgammaS
Descriptor: Cyanophycin synthase, MAGNESIUM ION, PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
Authors:Kawasaki, M, Miyakawa, T, Yang, J, Adachi, N, Fujii, A, Miyauchi, Y, Muramatsu, T, Moriya, T, Senda, T, Tanokura, M.
Deposit date:2021-12-14
Release date:2022-09-07
Last modified:2022-09-14
Method:ELECTRON MICROSCOPY (2.96 Å)
Cite:Structural bases for aspartate recognition and polymerization efficiency of cyanobacterial cyanophycin synthetase.
Nat Commun, 13, 2022
1O3Y
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BU of 1o3y by Molmil
Crystal structure of mouse ARF1 (delta17-Q71L), GTP form
Descriptor: ADP-ribosylation factor 1, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION
Authors:Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S.
Deposit date:2003-05-08
Release date:2003-05-20
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport
Nat.Struct.Biol., 10, 2003
1O3X
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BU of 1o3x by Molmil
Crystal structure of human GGA1 GAT domain
Descriptor: ADP-ribosylation factor binding protein GGA1
Authors:Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S.
Deposit date:2003-05-08
Release date:2003-05-20
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Molecular Mechanism of Membrane Recruitment of Gga by Arf in Lysosomal Protein Transport
Nat.Struct.Biol., 10, 2003
4DCN
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BU of 4dcn by Molmil
Crystal Structure Analysis of the Arfaptin2 BAR domain in Complex with ARL1
Descriptor: ADP-ribosylation factor-like protein 1, Arfaptin-2, MAGNESIUM ION, ...
Authors:Nakamura, K, Xie, Y, Kawasaki, M, Kato, R, Wakatsuki, S.
Deposit date:2012-01-18
Release date:2012-06-13
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (3.01 Å)
Cite:Structural basis for membrane binding specificity of the Bin/Amphiphysin/Rvs (BAR) domain of Arfaptin-2 determined by Arl1 GTPase
J.Biol.Chem., 287, 2012
5LRV
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BU of 5lrv by Molmil
Structure of Cezanne/OTUD7B OTU domain bound to Lys11-linked diubiquitin
Descriptor: GLYCEROL, OTU domain-containing protein 7B, PHOSPHATE ION, ...
Authors:Mevissen, T.E.T, Kulathu, Y, Mulder, M.P.C, Geurink, P.P, Maslen, S.L, Gersch, M, Elliott, P.R, Burke, J.E, van Tol, B.D.M, Akutsu, M, El Oualid, F, Kawasaki, M, Freund, S.M.V, Ovaa, H, Komander, D.
Deposit date:2016-08-22
Release date:2016-10-19
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Molecular basis of Lys11-polyubiquitin specificity in the deubiquitinase Cezanne.
Nature, 538, 2016
5LRW
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BU of 5lrw by Molmil
Structure of Cezanne/OTUD7B OTU domain bound to ubiquitin
Descriptor: GLYCEROL, OTU domain-containing protein 7B, Polyubiquitin-B
Authors:Mevissen, T.E.T, Kulathu, Y, Mulder, M.P.C, Geurink, P.P, Maslen, S.L, Gersch, M, Elliott, P.R, Burke, J.E, van Tol, B.D.M, Akutsu, M, El Oualid, F, Kawasaki, M, Freund, S.M.V, Ovaa, H, Komander, D.
Deposit date:2016-08-22
Release date:2016-10-19
Last modified:2017-09-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Molecular basis of Lys11-polyubiquitin specificity in the deubiquitinase Cezanne.
Nature, 538, 2016
5LRX
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BU of 5lrx by Molmil
Structure of A20 OTU domain bound to ubiquitin
Descriptor: Polyubiquitin-B, Tumor necrosis factor alpha-induced protein 3
Authors:Mevissen, T.E.T, Kulathu, Y, Mulder, M.P.C, Geurink, P.P, Maslen, S.L, Gersch, M, Elliott, P.R, Burke, J.E, van Tol, B.D.M, Akutsu, M, El Oualid, F, Kawasaki, M, Freund, S.M.V, Ovaa, H, Komander, D.
Deposit date:2016-08-22
Release date:2016-10-19
Last modified:2017-09-13
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Molecular basis of Lys11-polyubiquitin specificity in the deubiquitinase Cezanne.
Nature, 538, 2016
5LRU
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BU of 5lru by Molmil
Structure of Cezanne/OTUD7B OTU domain
Descriptor: OTU domain-containing protein 7B
Authors:Mevissen, T.E.T, Kulathu, Y, Mulder, M.P.C, Geurink, P.P, Maslen, S.L, Gersch, M, Elliott, P.R, Burke, J.E, van Tol, B.D.M, Akutsu, M, El Oualid, F, Kawasaki, M, Freund, S.M.V, Ovaa, H, Komander, D.
Deposit date:2016-08-22
Release date:2016-10-19
Last modified:2017-09-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Molecular basis of Lys11-polyubiquitin specificity in the deubiquitinase Cezanne.
Nature, 538, 2016
2IEZ
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BU of 2iez by Molmil
Crystal Structure of mouse Rab27b bound to GDP in monoclinic space group
Descriptor: CALCIUM ION, GUANOSINE-5'-DIPHOSPHATE, Ras-related protein Rab-27B
Authors:Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S.
Deposit date:2006-09-19
Release date:2007-05-01
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structure of the small GTPase Rab27b shows an unexpected swapped dimer
Acta Crystallogr.,Sect.D, 63, 2007
2IEY
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BU of 2iey by Molmil
Crystal Structure of mouse Rab27b bound to GDP in hexagonal space group
Descriptor: GUANOSINE-5'-DIPHOSPHATE, Ras-related protein Rab-27B
Authors:Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S.
Deposit date:2006-09-19
Release date:2007-05-01
Last modified:2012-04-11
Method:X-RAY DIFFRACTION (3.18 Å)
Cite:Structure of the small GTPase Rab27b shows an unexpected swapped dimer
Acta Crystallogr.,Sect.D, 63, 2007
2IF0
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BU of 2if0 by Molmil
Crystal Structure of mouse Rab27b bound to GDP in monoclinic space group
Descriptor: GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Ras-related protein Rab-27B
Authors:Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S.
Deposit date:2006-09-19
Release date:2007-05-01
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structure of the small GTPase Rab27b shows an unexpected swapped dimer
Acta Crystallogr.,Sect.D, 63, 2007
7CFO
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BU of 7cfo by Molmil
Crystal structure of human RXRalpha ligand binding domain complexed with CBTF-EE.
Descriptor: 1-[3-(2-ethoxyethoxy)-5,5,8,8-tetramethyl-6,7-dihydronaphthalen-2-yl]-2-(trifluoromethyl)benzimidazole-5-carboxylic acid, GLYCEROL, Retinoic acid receptor RXR-alpha
Authors:Watanabe, M, Fujihara, M, Motoyama, T, Kawasaki, M, Yamada, S, Takamura, Y, Ito, S, Makishima, M, Nakano, S, Kakuta, H.
Deposit date:2020-06-27
Release date:2021-01-06
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Discovery of a "Gatekeeper" Antagonist that Blocks Entry Pathway to Retinoid X Receptors (RXRs) without Allosteric Ligand Inhibition in Permissive RXR Heterodimers.
J.Med.Chem., 64, 2021
4XKH
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BU of 4xkh by Molmil
CRYSTAL STRUCTURE OF THE AIRAPL TANDEM UIMS IN COMPLEX WITH A LYS48-LINKED TRI-UBIQUITIN
Descriptor: AN1-type zinc finger protein 2B, Polyubiquitin-C
Authors:Rahighi, S, Kawasaki, M, Stanhill, A, Wakatsuki, S.
Deposit date:2015-01-11
Release date:2016-02-17
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (3 Å)
Cite:Selective Binding of AIRAPL Tandem UIMs to Lys48-Linked Tri-Ubiquitin Chains.
Structure, 24, 2016
4Z4K
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BU of 4z4k by Molmil
Crystal structure of GFP-TAX1BP1 UBZ1+2 domain fusion protein
Descriptor: Green fluorescent protein,Tax1-binding protein 1, ZINC ION
Authors:Rohaim, A, Kawasaki, M, Wakatsuki, S.
Deposit date:2015-04-02
Release date:2016-04-06
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:A novel mode of ubiquitin recognition by the ubiquitin-binding zinc finger domain of WRNIP1.
Febs J., 283, 2016
4Z4M
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BU of 4z4m by Molmil
Crystal structure of GFP-TAX1BP1 UBZ2 domain fusion protein
Descriptor: Green fluorescent protein,Tax1-binding protein 1, ZINC ION
Authors:Rohaim, A, Kawasaki, M, Wakatsuki, S.
Deposit date:2015-04-02
Release date:2016-04-06
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:A novel mode of ubiquitin recognition by the ubiquitin-binding zinc finger domain of WRNIP1.
Febs J., 283, 2016
4P09
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BU of 4p09 by Molmil
Crystal structure of HOIP PUB domain
Descriptor: E3 ubiquitin-protein ligase RNF31
Authors:Akutsu, M, Schaeffer, V, Olma, M.H, Gomes, L.C, Kawasaki, M, Dikic, I.
Deposit date:2014-02-20
Release date:2014-05-07
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Binding of OTULIN to the PUB domain of HOIP controls NF-kappa B signaling.
Mol.Cell, 54, 2014
4P0A
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BU of 4p0a by Molmil
Crystal structure of HOIP PUB domain in complex with p97 PIM
Descriptor: E3 ubiquitin-protein ligase RNF31, Transitional endoplasmic reticulum ATPase
Authors:Akutsu, M, Schaeffer, V, Olma, M.H, Gomes, L.C, Kawasaki, M, Dikic, I.
Deposit date:2014-02-20
Release date:2014-05-07
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.3001 Å)
Cite:Binding of OTULIN to the PUB domain of HOIP controls NF-kappa B signaling.
Mol.Cell, 54, 2014
4P0B
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BU of 4p0b by Molmil
Crystal structure of HOIP PUB domain in complex with OTULIN PIM
Descriptor: E3 ubiquitin-protein ligase RNF31, Ubiquitin thioesterase otulin
Authors:Akutsu, M, Schaeffer, V, Olma, M.H, Gomes, L.C, Kawasaki, M, Dikic, I.
Deposit date:2014-02-20
Release date:2014-05-07
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.7005 Å)
Cite:Binding of OTULIN to the PUB domain of HOIP controls NF-kappa B signaling.
Mol.Cell, 54, 2014
8HW1
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BU of 8hw1 by Molmil
Far-red light-harvesting complex of Antarctic alga Prasiola crispa
Descriptor: (1S)-4-[(1E,3Z,5E,7E,9E,11E,13E,15E,17E)-3-(hydroxymethyl)-7,12,16-trimethyl-18-[(1R,4S)-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]-3,5,5-trimethyl-cyclohex-3-en-1-ol, (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL, CHLOROPHYLL A, ...
Authors:Kosugi, M, Kawasaki, M, Shibata, Y, Moriya, T, Adachi, N, Senda, T.
Deposit date:2022-12-28
Release date:2023-01-18
Last modified:2023-03-01
Method:ELECTRON MICROSCOPY (3.13 Å)
Cite:Uphill energy transfer mechanism for photosynthesis in an Antarctic alga.
Nat Commun, 14, 2023

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