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PDB: 167 results

2ZMZ
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The 1.37-A crystal structure of the hydroxylamine-induced deoxy-form of the copper-bound tyrosinase in complex with a caddie protein from Streptomyces castaneoglobisporus
Descriptor: CADDIE, COPPER (I) ION, NITRATE ION, ...
Authors:Matoba, Y, Sugiyama, M.
Deposit date:2008-04-21
Release date:2009-05-05
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.37 Å)
Cite:X-Ray Snapshots of a Hydroxylation Mechanism of Tyrosinase
To be Published
1KP4
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CALCIUM-BOUND FORM OF PROKARYOTIC PHOSPHOLIPASE A2
Descriptor: CALCIUM ION, phospholipase A2
Authors:Matoba, Y, Katsube, Y, Sugiyama, M.
Deposit date:2001-12-28
Release date:2002-09-04
Last modified:2024-10-23
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:The crystal structure of prokaryotic phospholipase A2.
J.Biol.Chem., 277, 2002
1LWB
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Crystal structure of prokaryotic phospholipase A2 at atomic resolution
Descriptor: putative secreted protein
Authors:Matoba, Y, Sugiyama, M.
Deposit date:2002-05-31
Release date:2003-06-10
Last modified:2024-10-23
Method:X-RAY DIFFRACTION (1.05 Å)
Cite:Atomic resolution structure of prokaryotic phospholipase A2: Analysis of internal motion and implication for a catalytic mechanism.
PROTEINS: STRUCT.,FUNCT.,GENET., 51, 2003
1FAZ
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THE CRYSTAL STRUCTURE OF PROKARYOTIC PHOSPHOLIPASE A2
Descriptor: PHOSPHOLIPASE A2
Authors:Matoba, Y, katsube, Y, Sugiyama, M.
Deposit date:2000-07-14
Release date:2001-07-18
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:The crystal structure of prokaryotic phospholipase A2.
J.Biol.Chem., 277, 2002
2KFK
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Solution structure of Bem1p PB1 domain complexed with Cdc24p PB1 domain
Descriptor: Bud emergence protein 1, Cell division control protein 24
Authors:Kobashigawa, Y, Yoshinaga, S, Tandai, T, Ogura, K, Inagaki, F.
Deposit date:2009-02-23
Release date:2009-10-06
Last modified:2024-05-29
Method:SOLUTION NMR
Cite:NMR structure of the heterodimer of Bem1 and Cdc24 PB1 domains from Saccharomyces cerevisiae
J.Biochem., 146, 2009
5Z0H
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Crystal structure of copper-bound tyrosinase from Streptomyces castaneoglobisporus in complex with the caddie protein obtained by soaking in the hydroxylamine-containing solution for 2 h at 298 K
Descriptor: COPPER (II) ION, MelC, NITRATE ION, ...
Authors:Matoba, Y, Sugiyama, M.
Deposit date:2017-12-19
Release date:2018-12-26
Last modified:2024-11-13
Method:X-RAY DIFFRACTION (1.18 Å)
Cite:Catalytic mechanism of tyrosinase implied from the quinone formation on the Tyr98 residue of the caddie protein
To Be Published
5Z0G
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Crystal structure of copper-bound tyrosinase from Streptomyces castaneoglobisporus in complex with the caddie protein obtained by soaking in the hydroxylamine-containing solution for 20 min at 298 K
Descriptor: COPPER (II) ION, MelC, NITRATE ION, ...
Authors:Matoba, Y, Sugiyama, M.
Deposit date:2017-12-19
Release date:2018-12-26
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.32 Å)
Cite:Catalytic mechanism of tyrosinase implied from the quinone formation on the Tyr98 residue of the caddie protein
To Be Published
5B1I
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Crystal structure of K42A mutant of cystathionine beta-synthase from Lactobacillus plantarum in a complex with L-methionine
Descriptor: Cystathionine beta-synthase, N-[(3-HYDROXY-2-METHYL-5-{[(TRIHYDROXYPHOSPHORANYL)OXY]METHYL}PYRIDIN-4-YL)METHYLENE]METHIONINE, SULFATE ION
Authors:Matoba, Y, Sugiyama, M.
Deposit date:2015-12-04
Release date:2016-12-07
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Crystallographic and mutational analyses of cystathionine beta-synthase in the H2 S-synthetic gene cluster in Lactobacillus plantarum
Protein Sci., 26, 2017
5B1H
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Crystal structure of cystathionine beta-synthase from Lactobacillus plantarum
Descriptor: Cystathionine beta-synthase, GLYCEROL, SULFATE ION
Authors:Matoba, Y, Sugiyama, M.
Deposit date:2015-12-04
Release date:2016-12-07
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystallographic and mutational analyses of cystathionine beta-synthase in the H2 S-synthetic gene cluster in Lactobacillus plantarum
Protein Sci., 26, 2017
1BQT
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THREE-DIMENSIONAL STRUCTURE OF HUMAN INSULIN-LIKE GROWTH FACTOR-I (IGF-I) DETERMINED BY 1H-NMR AND DISTANCE GEOMETRY, 6 STRUCTURES
Descriptor: INSULIN-LIKE GROWTH FACTOR-I
Authors:Sato, A, Nishimura, S, Ohkubo, T, Kyogoku, Y, Koyama, S, Kobayashi, M, Yasuda, T, Kobayashi, Y.
Deposit date:1998-08-18
Release date:1999-05-18
Last modified:2024-10-30
Method:SOLUTION NMR
Cite:Three-dimensional structure of human insulin-like growth factor-I (IGF-I) determined by 1H-NMR and distance geometry.
Int.J.Pept.Protein Res., 41, 1993
9IQ9
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Crystal structure of Copper-bound N(omega)-hydroxy-L-arginine hydrolase with reduced Cys86
Descriptor: COPPER (I) ION, MAGNESIUM ION, MANGANESE (II) ION, ...
Authors:Oda, K, Matoba, Y.
Deposit date:2024-07-12
Release date:2024-07-24
Method:X-RAY DIFFRACTION (1.58 Å)
Cite:Copper inactivates DcsB by oxidation of the Cys86 to cysteine sulfinic aicd
To Be Published
3VOR
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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:2024-10-30
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
3WJ4
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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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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
3AQB
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M. luteus B-P 26 heterodimeric hexaprenyl diphosphate synthase in complex with magnesium
Descriptor: CHLORIDE ION, Component A of hexaprenyl diphosphate synthase, Component B of hexaprenyl diphosphate synthase, ...
Authors:Sasaki, D, Fujihashi, M, Okuyama, N, Kobayashi, Y, Noike, M, Koyama, T, Miki, K.
Deposit date:2010-10-28
Release date:2010-11-10
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation.
J.Biol.Chem., 286, 2011
3AQC
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M. luteus B-P 26 heterodimeric hexaprenyl diphosphate synthase in complex with magnesium and FPP analogue
Descriptor: (2E,6E)-7,11-dimethyldodeca-2,6,10-trien-1-yl trihydrogen diphosphate, CHLORIDE ION, Component A of hexaprenyl diphosphate synthase, ...
Authors:Sasaki, D, Fujihashi, M, Okuyama, N, Kobayashi, Y, Noike, M, Koyama, T, Miki, K.
Deposit date:2010-10-28
Release date:2010-11-10
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.61 Å)
Cite:Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation.
J.Biol.Chem., 286, 2011
1IY4
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Solution structure of the human lysozyme at 35 degree C
Descriptor: Lysozyme
Authors:Kumeta, H, Miura, A, Kobashigawa, Y, Miura, K, Oka, C, Nitta, K, Nemoto, N, Tsuda, S.
Deposit date:2002-07-15
Release date:2002-07-31
Last modified:2024-11-13
Method:SOLUTION NMR
Cite:Low-temperature-induced structural changes in human lysozyme elucidated by three-dimensional NMR spectroscopy
Biochemistry, 42, 2003
2E5E
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BU of 2e5e by Molmil
Solution Structure of Variable-type Domain of Human Receptor for Advanced Glycation Endproducts
Descriptor: Advanced glycosylation end product-specific receptor
Authors:Matsumoto, S, Yoshida, T, Yasumatsu, I, Yamamoto, H, Kobayashi, Y, Ohkubo, T.
Deposit date:2006-12-20
Release date:2007-12-25
Last modified:2024-10-30
Method:SOLUTION NMR
Cite:Solution Structure of Variable-type Domain of Human Receptor for Advanced Glycation Endproducts
to be published
1V6R
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Solution Structure of Endothelin-1 with its C-terminal Folding
Descriptor: Endothelin-1
Authors:Takashima, H, Mimura, N, Ohkubo, T, Yoshida, T, Tamaoki, H, Kobayashi, Y.
Deposit date:2003-12-03
Release date:2004-03-16
Last modified:2024-10-30
Method:SOLUTION NMR
Cite:Distributed Computing and NMR Constraint-Based High-Resolution Structure Determination: Applied for Bioactive Peptide Endothelin-1 To Determine C-Terminal Folding
J.Am.Chem.Soc., 126, 2004
2Z2T
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BU of 2z2t by Molmil
Crystal structure of the complex between gp41 fragment N36 and fusion inhibitor SC34EK
Descriptor: ACETIC ACID, Fusion inhibitor peptide SC34EK, SULFATE ION, ...
Authors:Nakamura, S, Ohkubo, T, Kobayashi, Y.
Deposit date:2007-05-28
Release date:2008-06-03
Last modified:2024-10-23
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Intrahelical Salt-bridges in a-Helical Peptide Enhances its Binding to the Target: A New Design for HIV-1 Fusion Inhibitors
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
3AHA
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BU of 3aha by Molmil
Crystal structure of the complex between gp41 fragments N36 and C34 mutant N126K/E137Q
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, CHLORIDE ION, Transmembrane protein gp41
Authors:Izumi, K, Nakamura, S, Nakano, H, Shimura, K, Sakagami, Y, Oishi, S, Uchiyama, S, Ohkubo, T, Kobayashi, Y, Fujii, N, Matsuoka, M, Kodama, E.N.
Deposit date:2010-04-22
Release date:2010-05-19
Last modified:2024-10-23
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Characterization of HIV-1 resistance to a fusion inhibitor, N36, derived from the gp41 amino terminal heptad repeat.
Antiviral Res., 2010
2Z6W
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Crystal structure of human cyclophilin D in complex with cyclosporin A
Descriptor: CITRIC ACID, CYCLOSPORIN A, PEPTIDYL-PROLYL CIS-TRANS ISOMERASE
Authors:Kajitani, K, Fujihashi, M, Kobayashi, Y, Shimizu, S, Tsujimoto, Y, Miki, K.
Deposit date:2007-08-09
Release date:2008-04-29
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (0.96 Å)
Cite:Crystal Structure of Human Cyclophilin D in Complex with its Inhibitor, Cyclosporin a at 0.96-A Resolution.
Proteins, 70, 2008
1IY6
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Solution structure of OMSVP3 variant, P14C/N39C
Descriptor: OMSVP3
Authors:Hemmi, H, Kumazaki, T, Yamazaki, T, Kojima, S, Yoshida, T, Kyogoku, Y, Katsu, M, Yokosawa, H, Miura, K, Kobayashi, Y.
Deposit date:2002-07-23
Release date:2003-03-11
Last modified:2024-11-13
Method:SOLUTION NMR
Cite:Inhibitory Specificity Change of Ovomucoid Third Domain of the Silver Pheasant upon Introduction of an Engineered Cys14-Cys39 Bond
BIOCHEMISTRY, 42, 2003
3VX7
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Crystal structure of Kluyveromyces marxianus Atg7NTD-Atg10 complex
Descriptor: E1, E2
Authors:Yamaguchi, M, Matoba, K, Sawada, R, Fujioka, Y, Nakatogawa, H, Yamamoto, H, Kobashigawa, Y, Hoshida, H, Akada, R, Ohsumi, Y, Noda, N.N, Inagaki, F.
Deposit date:2012-09-11
Release date:2012-11-14
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Noncanonical recognition and UBL loading of distinct E2s by autophagy-essential Atg7.
Nat.Struct.Mol.Biol., 19, 2012

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