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5AX6
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BU of 5ax6 by Molmil
The crystal structure of CofB, the minor pilin subunit of CFA/III from human enterotoxigenic Escherichia coli.
Descriptor: ACETATE ION, CofB
Authors:Kawahara, K, Oki, K, Fukaksua, F, Maruno, T, Kobayashi, Y, Daisuke, M, Taniguchi, T, Honda, T, Iida, T, Nakamura, S, Ohkubo, T.
Deposit date:2015-07-16
Release date:2016-03-09
Last modified:2020-02-26
Method:X-RAY DIFFRACTION (1.88 Å)
Cite:Homo-trimeric Structure of the Type IVb Minor Pilin CofB Suggests Mechanism of CFA/III Pilus Assembly in Human Enterotoxigenic Escherichia coli
J.Mol.Biol., 428, 2016
5H03
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BU of 5h03 by Molmil
Crystal structure of an ADP-ribosylating toxin BECa from C. perfringens
Descriptor: Binary enterotoxin of Clostridium perfringens component a
Authors:Kawahara, K, Yonogi, S, Munetomo, R, Oki, H, Yoshida, T, Ohkubo, T, Kumeda, Y, Matsuda, S, Kodama, T, Iida, T, Nakamura, S.
Deposit date:2016-10-03
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.89 Å)
Cite:Crystal structure of the ADP-ribosylating component of BEC, the binary enterotoxin of Clostridium perfringens.
Biochem.Biophys.Res.Commun., 480, 2016
5H04
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BU of 5h04 by Molmil
Crystal structure of an ADP-ribosylating toxin BECa of a novel binary enterotoxin of C. perfringens with NADH
Descriptor: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, Binary enterotoxin of Clostridium perfringens component a
Authors:Kawahara, K, Yonogi, S, Munetomo, R, Oki, H, Yoshida, T, Ohkubo, T, Kumeda, Y, Matsuda, S, Kodama, T, Iida, T, Nakamura, S.
Deposit date:2016-10-03
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.825 Å)
Cite:Crystal structure of the ADP-ribosylating component of BEC, the binary enterotoxin of Clostridium perfringens.
Biochem.Biophys.Res.Commun., 480, 2016
6LOS
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BU of 6los by Molmil
Crystal structure of mouse PEDF in complex with heterotrimeric collagen model peptide.
Descriptor: Collagen model peptide, type I, alpha 1, ...
Authors:Kawahara, K, Maruno, T, Oki, H, Yoshida, T, Ohkubo, T, Koide, T, Kobayashi, Y.
Deposit date:2020-01-07
Release date:2020-09-02
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.476 Å)
Cite:Spatiotemporal regulation of PEDF signaling by type I collagen remodeling.
Proc.Natl.Acad.Sci.USA, 117, 2020
1WZB
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BU of 1wzb by Molmil
Crystal structure of the collagen triple helix model [{HYP(R)-HYP(R)-GLY}10]3
Descriptor: Collagen triple helix
Authors:Kawahara, K, Nakamura, S, Nishi, Y, Uchiyama, S, Nishiuchi, Y, Nakazawa, T, Ohkubo, T, Kobayashi, Y.
Deposit date:2005-03-03
Release date:2006-01-31
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Effect of hydration on the stability of the collagen-like triple-helical structure of [4(R)-hydroxyprolyl-4(R)-hydroxyprolylglycine]10
Biochemistry, 44, 2005
4U4P
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BU of 4u4p by Molmil
Crystal structure of the human condensin SMC hinge domain heterodimer with short coiled coils
Descriptor: Structural maintenance of chromosomes protein 2, Structural maintenance of chromosomes protein 4
Authors:Uchiyama, S, Kawahara, K, Hosokawa, Y, Fukakusa, S, Oki, H, Nakamura, S, Noda, M, Takino, R, Miyahara, Y, Maruno, T, Kobayashi, Y, Ohkubo, T, Fukui, K.
Deposit date:2014-07-24
Release date:2015-08-26
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.89 Å)
Cite:Structural basis for dimer information and DNA recognition of human SMC proteins
to be published
7EAD
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BU of 7ead by Molmil
Crystal structure of beta-sheet cytochrome c prime from Thermus thermophilus.
Descriptor: Cytochrome_P460 domain-containing protein, HEME C
Authors:Yoshimi, T, Fujii, S, Oki, H, Igawa, T, Adams, R.H, Ueda, K, Kawahara, K, Ohkubo, T, Hough, A.M, Sambongi, Y.
Deposit date:2021-03-07
Release date:2022-03-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.74 Å)
Cite:Crystal structure of thermally stable homodimeric cytochrome c'-beta from Thermus thermophilus.
Acta Crystallogr.,Sect.F, 78, 2022
8H28
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BU of 8h28 by Molmil
Crystal structure of the K87V mutant of cytochrome c' from Shewanella benthica DB6705
Descriptor: Class II cytochrome c, HEME C
Authors:Fujii, S, Sakaguchi, R, Oki, H, Kawahara, K, Ohkubo, T, Fujiyoshi, S, Sambongi, Y.
Deposit date:2022-10-05
Release date:2023-10-11
Method:X-RAY DIFFRACTION (2.06 Å)
Cite:Contribution of salt bridge and solvent interaction to thermal stability of cytochromes c' from deep-sea psychrophilic and piezophilic Shewanella species
To Be Published
2ZXY
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BU of 2zxy by Molmil
Crystal Structure of Cytochrome c555 from Aquifex aeolicus
Descriptor: Cytochrome c552, HEME C
Authors:Obuchi, M, Kawahara, K, Motooka, D, Nakamura, S, Yamanaka, M, Takeda, T, Uchiyama, S, Kobayashi, Y, Ohkubo, T, Sambongi, Y.
Deposit date:2009-01-09
Release date:2009-08-04
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.15 Å)
Cite:Hyperstability and crystal structure of cytochrome c(555) from hyperthermophilic Aquifex aeolicus
Acta Crystallogr.,Sect.D, 65, 2009
3B2C
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BU of 3b2c by Molmil
Crystal structure of the collagen triple helix model [{PRO-HYP(R)-GLY}4-{HYP(S)-Pro-GLY}2-{PRO-HYP(R)-GLY}4]3
Descriptor: Collagen-like peptide
Authors:Motooka, D, Kawahara, K, Nakamura, S, Doi, M, Nishi, Y, Nishiuchi, Y, Nakazawa, T, Yoshida, T, Ohkubo, T, Kobayashi, Y, Kang, Y.K, Uchiyama, S.
Deposit date:2011-07-26
Release date:2012-04-04
Method:X-RAY DIFFRACTION (1.36 Å)
Cite:The triple helical structure and stability of collagen model peptide with 4(S)-hydroxyprolyl-pro-gly units
Biopolymers, 98, 2011
6KXX
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BU of 6kxx by Molmil
Human PPAR alpha ligand binding domain in complex with a synthetic agonist (compound A)
Descriptor: 1-(4-chlorophenyl)-6-methyl-3-propan-2-yl-pyrazolo[3,4-b]pyridine-4-carboxylic acid, PGC1alpha, Peroxisome proliferator-activated receptor alpha
Authors:Yoshida, T, Tachibana, K, Oki, H, Doi, M, Fukuda, S, Yuzuriha, T, Tabata, R, Ishimoto, K, Kawahara, K, Ohkubo, T, Miyachi, H, Doi, T.
Deposit date:2019-09-14
Release date:2020-05-20
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Structural Basis for PPAR alpha Activation by 1H-pyrazolo-[3,4-b]pyridine Derivatives.
Sci Rep, 10, 2020
6KXY
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BU of 6kxy by Molmil
Human PPAR alpha ligand binding domain in complex with a synthetic agonist (compound B)
Descriptor: 6-ethyl-1-(4-fluorophenyl)-3-pentan-3-yl-pyrazolo[3,4-b]pyridine-4-carboxylic acid, PGC1alpha, Peroxisome proliferator-activated receptor alpha
Authors:Yoshida, T, Tachibana, K, Oki, H, Doi, M, Fukuda, S, Yuzuriha, T, Tabata, R, Ishimoto, K, Kawahara, K, Ohkubo, T, Miyachi, H, Doi, T.
Deposit date:2019-09-14
Release date:2020-05-20
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural Basis for PPAR alpha Activation by 1H-pyrazolo-[3,4-b]pyridine Derivatives.
Sci Rep, 10, 2020
5B3I
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BU of 5b3i by Molmil
Homo-dimeric structure of cytochrome c' from Thermophilic Hydrogenophilus thermoluteolus
Descriptor: Cytochrome c prime, HEME C
Authors:Fujii, S, Oki, H, Kawahara, K, Yamane, D, Yamanaka, M, Maruno, T, Kobayashi, Y, Masanari, M, Wakai, S, Nishihara, H, Ohkubo, T, Sambongi, Y.
Deposit date:2016-02-29
Release date:2017-03-01
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.89 Å)
Cite:Structural and functional insights into thermally stable cytochrome c' from a thermophile
Protein Sci., 26, 2017
5B6Q
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BU of 5b6q by Molmil
Crystal structure of monomeric cytochrome c5 from Shewanella violacea
Descriptor: HEME C, IMIDAZOLE, Soluble cytochrome cA
Authors:Masanari, M, Fujii, S, Kawahara, K, Oki, H, Tsujino, H, Maruno, T, Kobayashi, Y, Ohkubo, T, Nishiyama, M, Harada, Y, Wakai, S, Sambongi, Y.
Deposit date:2016-06-01
Release date:2016-10-19
Last modified:2019-10-02
Method:X-RAY DIFFRACTION (1.78 Å)
Cite:Comparative study on stabilization mechanism of monomeric cytochrome c5 from deep-sea piezophilic Shewanella violacea
Biosci.Biotechnol.Biochem., 2016
6KQ1
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BU of 6kq1 by Molmil
Crystal structure of cytochrome c551 from Pseudomonas sp. strain MT-1.
Descriptor: Cytochrome C biogenesis protein CcsA, HEME C, ZINC ION
Authors:Fujii, S, Oki, H, Kawahara, K, Ohkubo, T, Masanari-Fujii, M, Wakai, S, Sambongi, Y.
Deposit date:2019-08-16
Release date:2020-08-19
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.57 Å)
Cite:Structural insights into high stability of cytochrome c551 from a deep-sea piezo-tolerant bacterium, Pseudomonas sp. strain MT-1
To Be Published
3WJ4
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BU of 3wj4 by Molmil
Crystal structure of PPARgamma ligand binding domain in complex with tributyltin
Descriptor: Peroxisome proliferator-activated receptor gamma, tributylstannanyl
Authors:Harada, S, Hiromori, Y, Fukakusa, S, Kawahara, K, Nakamura, S, Noda, M, Uchiyama, S, Fukui, K, Nishikawa, J, Nagase, H, Kobayashi, Y, Ohkubo, T, Yoshida, T, Nakanishi, T.
Deposit date:2013-10-04
Release date:2014-10-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Structural basis for PPARgamma transactivation by endocrine disrupting organotin compounds
To be Published
3WJ5
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BU of 3wj5 by Molmil
Crystal structure of PPARgamma ligand binding domain in complex with triphenyltin
Descriptor: Peroxisome proliferator-activated receptor gamma, triphenylstannanyl
Authors:Harada, S, Hiromori, Y, Fukakusa, S, Kawahara, K, Nakamura, S, Noda, M, Uchiyama, S, Fukui, K, Nishikawa, J, Nagase, H, Kobayashi, Y, Ohkubo, T, Yoshida, T, Nakanishi, T.
Deposit date:2013-10-04
Release date:2014-10-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.89 Å)
Cite:Structural basis for PPARgamma transactivation by endocrine disrupting organotin compounds
To be Published
7W63
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BU of 7w63 by Molmil
Crystal structure of minor pilin TcpB from Vibrio cholerae
Descriptor: SULFATE ION, Toxin-coregulated pilus biosynthesis protein B
Authors:Oki, H, Kawahara, K, Iimori, M, Imoto, Y, Maruno, T, Uchiyama, S, Muroga, Y, Yoshida, A, Yoshida, T, Ohkubo, T, Matsuda, S, Iida, T, Nakamura, S.
Deposit date:2021-12-01
Release date:2022-11-09
Last modified:2022-11-16
Method:X-RAY DIFFRACTION (2.32 Å)
Cite:Structural basis for the toxin-coregulated pilus-dependent secretion of Vibrio cholerae colonization factor.
Sci Adv, 8, 2022
7W65
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BU of 7w65 by Molmil
Crystal structure of minor pilin TcpB from Vibrio cholerae complexed with secreted protein TcpF
Descriptor: Toxin coregulated pilus biosynthesis protein F, Toxin-coregulated pilus biosynthesis protein B
Authors:Oki, H, Kawahara, K, Iimori, M, Imoto, Y, Maruno, T, Uchiyama, S, Muroga, Y, Yoshida, A, Yoshida, T, Ohkubo, T, Matsuda, S, Iida, T, Nakamura, S.
Deposit date:2021-12-01
Release date:2022-11-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (4.05 Å)
Cite:Structural basis for the toxin-coregulated pilus-dependent secretion of Vibrio cholerae colonization factor.
Sci Adv, 8, 2022
7W64
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BU of 7w64 by Molmil
Crystal structure of minor pilin TcpB from Vibrio cholerae complexed with N-terminal peptide fragment of TcpF
Descriptor: CALCIUM ION, CHLORIDE ION, PENTAETHYLENE GLYCOL, ...
Authors:Oki, H, Kawahara, K, Iimori, M, Imoto, Y, Maruno, T, Uchiyama, S, Muroga, Y, Yoshida, A, Yoshida, T, Ohkubo, T, Matsuda, S, Iida, T, Nakamura, S.
Deposit date:2021-12-01
Release date:2022-11-09
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural basis for the toxin-coregulated pilus-dependent secretion of Vibrio cholerae colonization factor.
Sci Adv, 8, 2022
5YQ0
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BU of 5yq0 by Molmil
Crystal structure of secreted protein CofJ from ETEC.
Descriptor: CALCIUM ION, CofJ
Authors:Oki, H, Kawahara, K, Maruno, T, Imai, T, Muroga, Y, Fukakusa, S, Iwashita, T, Kobayashi, Y, Matsuda, S, Kodama, T, Iida, T, Yoshida, T, Ohkubo, T, Nakamura, S.
Deposit date:2017-11-04
Release date:2018-06-27
Last modified:2018-07-25
Method:X-RAY DIFFRACTION (1.76 Å)
Cite:Interplay of a secreted protein with type IVb pilus for efficient enterotoxigenicEscherichia colicolonization
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
5YPZ
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BU of 5ypz by Molmil
Crystal structure of minor pilin CofB from CFA/III complexed with N-terminal peptide fragment of CofJ
Descriptor: CofB, CofJ
Authors:Oki, H, Kawahara, K, Maruno, T, Imai, T, Muroga, Y, Fukakusa, S, Iwashita, T, Kobayashi, Y, Matsuda, S, Kodama, T, Iida, T, Yoshida, T, Ohkubo, T, Nakamura, S.
Deposit date:2017-11-04
Release date:2018-06-27
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (3.521 Å)
Cite:Interplay of a secreted protein with type IVb pilus for efficient enterotoxigenicEscherichia colicolonization.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
6A3L
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BU of 6a3l by Molmil
Crystal structure of cytochrome c' from Shewanella violacea DSS12
Descriptor: Cytochrome c, HEME C
Authors:Suka, A, Oki, H, Kato, Y, Kawahara, K, Ohkubo, T, Maruno, T, Kobayashi, Y, Fujii, S, Wakai, S, Sambongi, Y.
Deposit date:2018-06-15
Release date:2019-06-12
Last modified:2019-10-02
Method:X-RAY DIFFRACTION (2.14 Å)
Cite:Stability of cytochromes c' from psychrophilic and piezophilic Shewanella species: implications for complex multiple adaptation to low temperature and high hydrostatic pressure.
Extremophiles, 23, 2019
6A3K
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BU of 6a3k by Molmil
Crystal structure of cytochrome c' from Shewanella benthica DB6705
Descriptor: Cytochrome c, HEME C, PENTAETHYLENE GLYCOL
Authors:Suka, A, Oki, H, Kato, Y, Kawahara, K, Ohkubo, T, Maruno, T, Kobayashi, Y, Fujii, S, Wakai, S, Sambongi, Y.
Deposit date:2018-06-15
Release date:2019-06-12
Last modified:2019-10-02
Method:X-RAY DIFFRACTION (1.71 Å)
Cite:Stability of cytochromes c' from psychrophilic and piezophilic Shewanella species: implications for complex multiple adaptation to low temperature and high hydrostatic pressure.
Extremophiles, 23, 2019
3VOR
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BU of 3vor by Molmil
Crystal Structure Analysis of the CofA
Descriptor: CFA/III pilin
Authors:Fukakusa, S, Kawahara, K, Nakamura, S, Iwasita, T, Baba, S, Nishimura, M, Kobayashi, Y, Honda, T, Iida, T, Taniguchi, T, Ohkubo, T.
Deposit date:2012-02-06
Release date:2012-09-26
Last modified:2013-07-31
Method:X-RAY DIFFRACTION (0.9 Å)
Cite:Structure of the CFA/III major pilin subunit CofA from human enterotoxigenic Escherichia coli determined at 0.90 A resolution by sulfur-SAD phasing
Acta Crystallogr.,Sect.D, 68, 2012

 

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