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PDB: 74 results

3B1O
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BU of 3b1o by Molmil
Structure of Burkholderia thailandensis nucleoside kinase (BthNK) in ligand-free form
Descriptor: Ribokinase, putative
Authors:Yasutake, Y, Ota, H, Hino, E, Sakasegawa, S, Tamura, T.
Deposit date:2011-07-05
Release date:2011-11-02
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structures of Burkholderia thailandensis nucleoside kinase: implications for the catalytic mechanism and nucleoside selectivity
Acta Crystallogr.,Sect.D, 67, 2011
5C9I
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BU of 5c9i by Molmil
Structure of N-acylhomoserine lactone acylase MacQ shortened spacer mutant (delta202-208) in uncleaved form
Descriptor: GLYCEROL, Protein related to penicillin acylase
Authors:Yasutake, Y, Kusada, H, Kimura, N.
Deposit date:2015-06-27
Release date:2016-06-29
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Bifunctional quorum-quenching and antibiotic-acylase MacQ forms a 170-kDa capsule-shaped molecule containing spacer polypeptides
Sci Rep, 7, 2017
7YM0
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BU of 7ym0 by Molmil
Lysoplasmalogen-specific phospholipase D (LyPls-PLD) with Ca2+
Descriptor: CALCIUM ION, Lysoplasmalogenase
Authors:Yasutake, Y, Sakasegawa, S, Sugimori, D, Murayama, K.
Deposit date:2022-07-27
Release date:2023-01-04
Last modified:2024-10-16
Method:X-RAY DIFFRACTION (2.91 Å)
Cite:Structural basis for the substrate specificity switching of lysoplasmalogen-specific phospholipase D from Thermocrispum sp. RD004668.
Biosci.Biotechnol.Biochem., 87, 2022
8X22
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BU of 8x22 by Molmil
HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y/L74V:DNA:dGTP ternary complex
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA/RNA (38-MER), GLYCEROL, ...
Authors:Yasutake, Y, Hattori, S.I, Mitsuya, H.
Deposit date:2023-11-09
Release date:2024-07-17
Method:X-RAY DIFFRACTION (2.31 Å)
Cite:Deviated binding of anti-HBV nucleoside analog E-CFCP-TP to the reverse transcriptase active site attenuates the effect of drug-resistant mutations.
Sci Rep, 14, 2024
8X21
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BU of 8x21 by Molmil
HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y/L74V:DNA:ETV-TP ternary complex
Descriptor: DNA/RNA (38-MER), GLYCEROL, HIV-1 RT p51 subunit, ...
Authors:Yasutake, Y, Hattori, S.I, Mitsuya, H.
Deposit date:2023-11-09
Release date:2024-07-17
Method:X-RAY DIFFRACTION (2.33 Å)
Cite:Deviated binding of anti-HBV nucleoside analog E-CFCP-TP to the reverse transcriptase active site attenuates the effect of drug-resistant mutations.
Sci Rep, 14, 2024
8X1Z
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BU of 8x1z by Molmil
HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y:DNA:E-CFCP-TP ternary complex
Descriptor: DNA/RNA (38-MER), E-CFCP-triphosphate, GLYCEROL, ...
Authors:Yasutake, Y, Hattori, S.I, Mitsuya, H.
Deposit date:2023-11-09
Release date:2024-07-17
Method:X-RAY DIFFRACTION (2.62 Å)
Cite:Deviated binding of anti-HBV nucleoside analog E-CFCP-TP to the reverse transcriptase active site attenuates the effect of drug-resistant mutations.
Sci Rep, 14, 2024
8X20
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BU of 8x20 by Molmil
HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y/L74V:DNA:E-CFCP-TP ternary complex
Descriptor: DNA/RNA (38-MER), E-CFCP-triphosphate, GLYCEROL, ...
Authors:Yasutake, Y, Hattori, S.I, Mitsuya, H.
Deposit date:2023-11-09
Release date:2024-07-17
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Deviated binding of anti-HBV nucleoside analog E-CFCP-TP to the reverse transcriptase active site attenuates the effect of drug-resistant mutations.
Sci Rep, 14, 2024
5GNM
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BU of 5gnm by Molmil
Cytochrome P450 Vdh (CYP107BR1) L348M mutant
Descriptor: PROTOPORPHYRIN IX CONTAINING FE, Vitamin D(3) 25-hydroxylase
Authors:Yasutake, Y, Tamura, T.
Deposit date:2016-07-22
Release date:2017-05-17
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structural insights into the mechanism of the drastic changes in enzymatic activity of the cytochrome P450 vitamin D3 hydroxylase (CYP107BR1) caused by a mutation distant from the active site
Acta Crystallogr F Struct Biol Commun, 73, 2017
5GNL
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BU of 5gnl by Molmil
Cytochrome P450 Vdh (CYP107BR1) F106V mutant
Descriptor: 2-(2-METHOXYETHOXY)ETHANOL, PROTOPORPHYRIN IX CONTAINING FE, Vitamin D(3) 25-hydroxylase
Authors:Yasutake, Y, Tamura, T.
Deposit date:2016-07-22
Release date:2017-05-17
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Structural insights into the mechanism of the drastic changes in enzymatic activity of the cytochrome P450 vitamin D3 hydroxylase (CYP107BR1) caused by a mutation distant from the active site
Acta Crystallogr F Struct Biol Commun, 73, 2017
1J1W
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BU of 1j1w by Molmil
Crystal Structure Of The Monomeric Isocitrate Dehydrogenase In Complex With NADP+
Descriptor: Isocitrate Dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:Yasutake, Y, Watanabe, S, Yao, M, Takada, Y, Fukunaga, N, Tanaka, I.
Deposit date:2002-12-19
Release date:2003-09-23
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Crystal Structure of the Monomeric Isocitrate Dehydrogenase in the Presence of NADP+
J.Biol.Chem., 278, 2003
1ITW
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BU of 1itw by Molmil
Crystal structure of the monomeric isocitrate dehydrogenase in complex with isocitrate and Mn
Descriptor: ISOCITRIC ACID, Isocitrate dehydrogenase, MANGANESE (II) ION
Authors:Yasutake, Y, Watanabe, S, Yao, M, Takada, Y, Fukunaga, N, Tanaka, I.
Deposit date:2002-02-12
Release date:2002-12-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Structure of the Monomeric Isocitrate Dehydrogenase: Evidence of a Protein Monomerization by a Domain Duplication
Structure, 10, 2002
7DBN
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BU of 7dbn by Molmil
HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y/M184V/F160M:DNA:dCTP ternary complex
Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA/RNA (38-MER), GLYCEROL, ...
Authors:Yasutake, Y, Hattori, S.I, Tamura, N, Maeda, K.
Deposit date:2020-10-21
Release date:2021-08-04
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.67 Å)
Cite:Biochemical and Structural Properties of Entecavir-Resistant Hepatitis B Virus Polymerase with L180M/M204V Mutations.
J.Virol., 95, 2021
7DBM
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BU of 7dbm by Molmil
HIV-1 reverse transcriptase mutant Q151M/Y115F/F116Y/M184V:DNA:dGTP ternary complex
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA/RNA (38-MER), GLYCEROL, ...
Authors:Yasutake, Y, Hattori, S.I, Tamura, N, Maeda, K.
Deposit date:2020-10-21
Release date:2021-08-04
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.43 Å)
Cite:Biochemical and Structural Properties of Entecavir-Resistant Hepatitis B Virus Polymerase with L180M/M204V Mutations.
J.Virol., 95, 2021
5XN1
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BU of 5xn1 by Molmil
HIV-1 reverse transcriptase Q151M:DNA:entecavir-triphosphate ternary complex
Descriptor: 38-MER DNA aptamer, GLYCEROL, MAGNESIUM ION, ...
Authors:Yasutake, Y, Tamura, N, Hayashi, H, Maeda, K.
Deposit date:2017-05-17
Release date:2018-02-07
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.446 Å)
Cite:HIV-1 with HBV-associated Q151M substitution in RT becomes highly susceptible to entecavir: structural insights into HBV-RT inhibition by entecavir.
Sci Rep, 8, 2018
5XN0
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BU of 5xn0 by Molmil
HIV-1 reverse transcriptase Q151M:DNA binary complex
Descriptor: 38-MER DNA aptamer, GLYCEROL, Pol protein, ...
Authors:Yasutake, Y, Tamura, N, Hayashi, H, Maeda, K.
Deposit date:2017-05-17
Release date:2018-02-07
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.596 Å)
Cite:HIV-1 with HBV-associated Q151M substitution in RT becomes highly susceptible to entecavir: structural insights into HBV-RT inhibition by entecavir.
Sci Rep, 8, 2018
5XN2
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BU of 5xn2 by Molmil
HIV-1 reverse transcriptase Q151M:DNA:dGTP ternary complex
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 38-MER DNA aptamer, GLYCEROL, ...
Authors:Yasutake, Y, Tamura, N, Hayashi, H, Maeda, K.
Deposit date:2017-05-17
Release date:2018-02-07
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.381 Å)
Cite:HIV-1 with HBV-associated Q151M substitution in RT becomes highly susceptible to entecavir: structural insights into HBV-RT inhibition by entecavir.
Sci Rep, 8, 2018
7COF
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BU of 7cof by Molmil
Cholesterol esterase from Burkholderia stabilis (orthorhombic crystal form)
Descriptor: Alpha/beta hydrolase, CALCIUM ION, GLYCEROL, ...
Authors:Yasutake, Y, Tamura, T.
Deposit date:2020-08-04
Release date:2020-12-16
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.084 Å)
Cite:Bacterial triacylglycerol lipase is a potential cholesterol esterase: Identification of a key determinant for sterol-binding specificity.
Int.J.Biol.Macromol., 167, 2021
7COG
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BU of 7cog by Molmil
Cholesterol esterase from Burkholderia stabilis (monoclinic crystal form)
Descriptor: Alpha/beta hydrolase, CALCIUM ION
Authors:Yasutake, Y, Tamura, T.
Deposit date:2020-08-04
Release date:2020-12-16
Last modified:2024-10-30
Method:X-RAY DIFFRACTION (2.098 Å)
Cite:Bacterial triacylglycerol lipase is a potential cholesterol esterase: Identification of a key determinant for sterol-binding specificity.
Int.J.Biol.Macromol., 167, 2021
4PB3
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BU of 4pb3 by Molmil
D-threo-3-hydroxyaspartate dehydratase H351A mutant
Descriptor: D-threo-3-hydroxyaspartate dehydratase, MAGNESIUM ION, PYRIDOXAL-5'-PHOSPHATE
Authors:Yasutake, Y, Matsumoto, Y, Wada, M.
Deposit date:2014-04-11
Release date:2015-03-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate.
Appl.Microbiol.Biotechnol., 99, 2015
4PB5
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BU of 4pb5 by Molmil
D-threo-3-hydroxyaspartate dehydratase H351A mutant complexed with L-erythro-3-hydroxyaspartate
Descriptor: (3R)-3-hydroxy-L-aspartic acid, D-threo-3-hydroxyaspartate dehydratase, GLYCEROL, ...
Authors:Yasutake, Y, Matsumoto, Y, Wada, M.
Deposit date:2014-04-11
Release date:2015-03-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate.
Appl.Microbiol.Biotechnol., 99, 2015
2DTX
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BU of 2dtx by Molmil
Structure of Thermoplasma acidophilum aldohexose dehydrogenase (AldT) in complex with D-mannose
Descriptor: Glucose 1-dehydrogenase related protein, SULFATE ION, beta-D-mannopyranose
Authors:Yasutake, Y, Nishiya, Y, Tamura, N, Tamura, T.
Deposit date:2006-07-18
Release date:2007-03-27
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural Insights into Unique Substrate Selectivity of Thermoplasma acidophilumd-Aldohexose Dehydrogenase
J.Mol.Biol., 367, 2007
4YF9
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BU of 4yf9 by Molmil
Structure of N-acylhomoserine lactone acylase MacQ
Descriptor: Protein related to penicillin acylase
Authors:Yasutake, Y, Kusada, H, Kimura, N.
Deposit date:2015-02-25
Release date:2016-03-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Bifunctional quorum-quenching and antibiotic-acylase MacQ forms a 170-kDa capsule-shaped molecule containing spacer polypeptides
Sci Rep, 7, 2017
4PB4
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BU of 4pb4 by Molmil
D-threo-3-hydroxyaspartate dehydratase H351A mutant complexed with 2-amino maleic acid
Descriptor: 2-amino maleic acid, D-threo-3-hydroxyaspartate dehydratase, MAGNESIUM ION, ...
Authors:Yasutake, Y, Matsumoto, Y, Wada, M.
Deposit date:2014-04-11
Release date:2015-03-11
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural insights into the substrate stereospecificity of D-threo-3-hydroxyaspartate dehydratase from Delftia sp. HT23: a useful enzyme for the synthesis of optically pure L-threo- and D-erythro-3-hydroxyaspartate.
Appl.Microbiol.Biotechnol., 99, 2015
2DTD
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BU of 2dtd by Molmil
Structure of Thermoplasma acidophilum aldohexose dehydrogenase (AldT) in ligand-free form
Descriptor: Glucose 1-dehydrogenase related protein, SULFATE ION
Authors:Yasutake, Y, Nishiya, Y, Tamura, N, Tamura, T.
Deposit date:2006-07-12
Release date:2007-03-27
Last modified:2024-10-09
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structural Insights into Unique Substrate Selectivity of Thermoplasma acidophilumd-Aldohexose Dehydrogenase
J.Mol.Biol., 367, 2007
2DTE
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BU of 2dte by Molmil
Structure of Thermoplasma acidophilum aldohexose dehydrogenase (AldT) in complex with NADH
Descriptor: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, Glucose 1-dehydrogenase related protein
Authors:Yasutake, Y, Nishiya, Y, Tamura, N, Tamura, T.
Deposit date:2006-07-12
Release date:2007-03-27
Last modified:2024-10-23
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Structural Insights into Unique Substrate Selectivity of Thermoplasma acidophilumd-Aldohexose Dehydrogenase
J.Mol.Biol., 367, 2007

 

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數據於2024-10-30公開中

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