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PDB: 211 results
1V3Y
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The crystal structure of peptide deformylase from Thermus thermophilus HB8
Descriptor: Peptide deformylase
Authors:Kamo, M, Kudo, N, Lee, W.C, Ito, K, Motoshim, H, Tanokura, M, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-11-07
Release date:2004-12-28
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.81 Å)
Cite:The crystal structure of peptide deformylase from Thermus thermophilus HB8
to be published
4YOY
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Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dT and Mg2+ ion
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*TP*TP*TP*TP*TP*TP*T)-3', MAGNESIUM ION
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
1V4B
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The crystal structure of AzoR (Azo Reductase) from Escherichia coli: Oxidized form
Descriptor: 1,2-ETHANEDIOL, FLAVIN MONONUCLEOTIDE, ISOPROPYL ALCOHOL, ...
Authors:Ito, K, Tanokura, M.
Deposit date:2003-11-12
Release date:2005-01-18
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Three-dimensional structure of AzoR from Escherichia coli. An oxidereductase conserved in microorganisms
J.Biol.Chem., 281, 2006
2EGD
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Crystal structure of human S100A13 in the Ca2+-bound state
Descriptor: CALCIUM ION, Protein S100-A13
Authors:Imai, F.L, Nagata, K, Yonezawa, N, Nakano, M, Tanokura, M.
Deposit date:2007-02-28
Release date:2008-03-11
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of human S100A13 in the Ca2+-bound state
Acta Crystallogr.,Sect.F, 64, 2008
4HE7
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Crystal Structure of Brazzein
Descriptor: Defensin-like protein, SODIUM ION
Authors:Nagata, K, Hongo, N, Kameda, Y, Yamamura, A, Sasaki, H, Lee, W.C, Ishikawa, K, Suzuki, E, Tanokura, M.
Deposit date:2012-10-03
Release date:2013-03-27
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:The structure of brazzein, a sweet-tasting protein from the wild African plant Pentadiplandra brazzeana
Acta Crystallogr.,Sect.D, 69, 2013
7CFA
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Crystal structure of the restriction DNA glycosylase R.CcoLI
Descriptor: R.Pab1 family restriction endonuclease
Authors:Miyazono, K, Wang, D, Ito, T, Tanokura, M.
Deposit date:2020-06-25
Release date:2020-12-16
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.355 Å)
Cite:Crystal structure and DNA cleavage mechanism of the restriction DNA glycosylase R.CcoLI from Campylobacter coli.
Sci Rep, 11, 2021
7CO1
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Crystal structure of SMAD2 in complex with wild-type CBP
Descriptor: CREB-binding protein, Mothers against decapentaplegic homolog 2
Authors:Miyazono, K, Wada, H, Ito, T, Tanokura, M.
Deposit date:2020-08-03
Release date:2020-11-25
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (3.3 Å)
Cite:Structural basis for transcriptional coactivator recognition by SMAD2 in TGF-beta signaling.
Sci.Signal., 13, 2020
2DVY
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BU of 2dvy by Molmil
Crystal structure of restriction endonucleases PabI
Descriptor: Restriction endonuclease PabI
Authors:Miyazono, K, Watanabe, M, Kamo, M, Sawasaki, T, Nagata, K, Endo, Y, Tanokura, M, Kobayashi, I.
Deposit date:2006-08-01
Release date:2007-05-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3 Å)
Cite:Novel protein fold discovered in the PabI family of restriction enzymes
Nucleic Acids Res., 35, 2007
4YOX
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Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dT
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*TP*TP*TP*TP*TP*TP*T)-3'
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOU
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Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 at 2.20A resolution.
Descriptor: 3-5 exonuclease PhoExo I, MAGNESIUM ION
Authors:Miyazono, K, Tsutsumi, K, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOR
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Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 at 1.52A resolution.
Descriptor: 3-5 exonuclease PhoExo I, MAGNESIUM ION
Authors:Miyazono, K, Tsutsumi, K, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.52 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOT
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Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 at 2.15A resolution
Descriptor: 3-5 exonuclease PhoExo I, MAGNESIUM ION
Authors:Miyazono, K, Tsutsumi, K, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOW
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Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dC
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*CP*CP*CP*CP*CP*CP*C)-3'
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
5B0H
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CRYSTAL STRUCTURE OF HUMAN LEUKOCYTE CELL-DERIVED CHEMOTAXIN 2
Descriptor: Leukocyte cell-derived chemotaxin-2, SULFATE ION, ZINC ION
Authors:Zheng, H, Miyakawa, T, Sawano, Y, Tanokura, M.
Deposit date:2015-10-29
Release date:2016-07-06
Last modified:2020-02-26
Method:X-RAY DIFFRACTION (1.94 Å)
Cite:Crystal Structure of Human Leukocyte Cell-derived Chemotaxin 2 (LECT2) Reveals a Mechanistic Basis of Functional Evolution in a Mammalian Protein with an M23 Metalloendopeptidase Fold
J.Biol.Chem., 291, 2016
2D37
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The Crystal Structure of Flavin Reductase HpaC complexed with NAD+
Descriptor: FLAVIN MONONUCLEOTIDE, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, hypothetical NADH-dependent FMN oxidoreductase
Authors:Okai, M, Kudo, N, Lee, W.C, Kamo, M, Nagata, K, Tanokura, M.
Deposit date:2005-09-26
Release date:2006-05-30
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structures of the short-chain flavin reductase HpaC from Sulfolobus tokodaii strain 7 in its three states: NAD(P)(+)(-)free, NAD(+)(-)bound, and NADP(+)(-)bound
Biochemistry, 45, 2006
2D36
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The Crystal Structure of Flavin Reductase HpaC
Descriptor: FLAVIN MONONUCLEOTIDE, hypothetical NADH-dependent FMN oxidoreductase
Authors:Okai, M, Kudo, N, Lee, W.C, Kamo, M, Nagata, K, Tanokura, M.
Deposit date:2005-09-26
Release date:2006-05-30
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structures of the short-chain flavin reductase HpaC from Sulfolobus tokodaii strain 7 in its three states: NAD(P)(+)(-)free, NAD(+)(-)bound, and NADP(+)(-)bound
Biochemistry, 45, 2006
2D38
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BU of 2d38 by Molmil
The Crystal Structure of Flavin Reductase HpaC complexed with NADP+
Descriptor: FLAVIN MONONUCLEOTIDE, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, hypothetical NADH-dependent FMN oxidoreductase
Authors:Okai, M, Kudo, N, Lee, W.C, Kamo, M, Nagata, K, Tanokura, M.
Deposit date:2005-09-26
Release date:2006-05-30
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Crystal structures of the short-chain flavin reductase HpaC from Sulfolobus tokodaii strain 7 in its three states: NAD(P)(+)(-)free, NAD(+)(-)bound, and NADP(+)(-)bound
Biochemistry, 45, 2006
4YOV
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BU of 4yov by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dA
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*AP*AP*AP*AP*AP*AP*A)-3'
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
1V3Z
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Crystal Structure of Acylphosphatase from Pyrococcus horikoshii
Descriptor: Acylphosphatase, CHLORIDE ION, POTASSIUM ION
Authors:Miyazono, K, Tanokura, M.
Deposit date:2003-11-07
Release date:2004-11-30
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.72 Å)
Cite:Crystal structure of acylphosphatase from hyperthermophilic archaeon Pyrococcus horikoshii OT3
PROC.JPN.ACAD.,SER.B, 80, 2004
1V5Y
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Binding of coumarins to NAD(P)H:FMN oxidoreductase
Descriptor: 4-HYDROXY-2H-CHROMEN-2-ONE, FLAVIN MONONUCLEOTIDE, Major NAD(P)H-flavin oxidoreductase
Authors:Kobori, T, Koike, H, Sasaki, H, Zenno, S, Saigo, K, Tanokura, M.
Deposit date:2003-11-26
Release date:2005-03-08
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Binding of coumarins to NAD(P)H:FMN oxidoreductase
To be Published
1V46
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BU of 1v46 by Molmil
Solution Structure of CCAP (Crustacean Cardioactive Peptide) from Drosophila melanogaster
Descriptor: Cardioactive Peptide
Authors:Nagata, K, Tanokura, M.
Deposit date:2003-11-10
Release date:2004-12-14
Last modified:2023-12-27
Method:SOLUTION NMR
Cite:Solution structure of CCAP from Drosophila melanogaster
To be Published
1V5Z
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BU of 1v5z by Molmil
Binding of coumarins to NAD(P)H:FMN oxidoreductase
Descriptor: (2E)-3-(2-HYDROXYPHENYL)ACRYLIC ACID, FLAVIN MONONUCLEOTIDE, Major NAD(P)H-flavin oxidoreductase
Authors:Kobori, T, Koike, H, Sasaki, H, Zenno, S, Saigo, K, Tanokura, M.
Deposit date:2003-11-26
Release date:2005-03-08
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Binding of coumarins to NAD(P)H:FMN oxidoreductase
To be Published
2D7J
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BU of 2d7j by Molmil
Crystal Structure Analysis of Glutamine Amidotransferase from Pyrococcus horikoshii OT3
Descriptor: GMP synthase [glutamine-hydrolyzing] subunit A
Authors:Maruoka, S, Lee, W.C, Kamo, M, Kudo, N, Nagata, K, Tanokura, M.
Deposit date:2005-11-21
Release date:2006-11-21
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.89 Å)
Cite:Crystal structure of glutamine amidotransferase from Pyrococcus horikoshii OT3
PROC.JPN.ACAD.,SER.B, 81, 2005
2D5I
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BU of 2d5i by Molmil
The crystal structure of AzoR (Azo Reductase) from Escherichia coli
Descriptor: Azo Reductase, FLAVIN MONONUCLEOTIDE, GLYCEROL
Authors:Ito, K, Tanokura, M.
Deposit date:2005-11-02
Release date:2006-05-16
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Three-dimensional structure of AzoR from Escherichia coli. An oxidereductase conserved in microorganisms
J.Biol.Chem., 281, 2006
2ZUA
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BU of 2zua by Molmil
Crystal structure of nucleoside diphosphate kinase from Haloarcula quadrata
Descriptor: Nucleoside diphosphate kinase
Authors:Ichimura, T, Yamamura, A, Ohtsuka, J, Miyazono, K, Okai, M, Nagata, K, Tanokura, M.
Deposit date:2008-10-15
Release date:2009-08-25
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.59 Å)
Cite:Molecular mechanism of distinct salt-dependent enzyme activity of two halophilic nucleoside diphosphate kinases
Biophys.J., 96, 2009

219515

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