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8WWY
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BU of 8wwy by Molmil
Crystal structure of mouse TIFA/TIFAB heterodimer
Descriptor: (2R,5R)-hexane-2,5-diol, TRAF-interacting protein with FHA domain-containing protein A, TRAF-interacting protein with FHA domain-containing protein B
Authors:Nakamura, T.
Deposit date:2023-10-27
Release date:2024-03-13
Method:X-RAY DIFFRACTION (1.79 Å)
Cite:TIFAB regulates the TIFA-TRAF6 signaling pathway involved in innate immunity by forming a heterodimer complex with TIFA.
Proc.Natl.Acad.Sci.USA, 121, 2024
6IJY
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BU of 6ijy by Molmil
Crystal structure of human MTH1(G2K/C87A/C104S mutant) in complex with 8-oxo-dGTP determined using a crystal obtained under microgravity
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, GLYCEROL, ...
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2018-10-12
Release date:2019-02-20
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.04 Å)
Cite:X-ray Structure Analysis of Human Oxidized Nucleotide Hydrolase MTH1 using Crystals Obtained under Microgravity.
Int. J. Microgravity Sci. Appl., 36, 2019
2NVL
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BU of 2nvl by Molmil
Crystal structure of archaeal peroxiredoxin, thioredoxin peroxidase from Aeropyrum pernix K1 (sulfonic acid form)
Descriptor: Probable peroxiredoxin
Authors:Nakamura, T, Yamamoto, T, Abe, M, Matsumura, H, Hagihara, Y, Goto, T, Yamaguchi, T, Inoue, T.
Deposit date:2006-11-13
Release date:2007-11-20
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.36 Å)
Cite:Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate
Proc.Natl.Acad.Sci.Usa, 105, 2008
4ED8
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BU of 4ed8 by Molmil
Human DNA polymerase eta - DNA ternary complex: Reaction in the TG crystal at pH 7.0, Normal translocation
Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*G)-3'), ...
Authors:Nakamura, T, Zhao, Y, Yang, W.
Deposit date:2012-03-27
Release date:2012-07-11
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.521 Å)
Cite:Watching DNA polymerase eta make a phosphodiester bond
Nature, 487, 2012
2ZS6
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BU of 2zs6 by Molmil
HA3 subcomponent of botulinum type C progenitor toxin
Descriptor: Hemagglutinin components HA3
Authors:Nakamura, T, Tonozuka, T, Kotani, M, Oguma, K, Nishikawa, A.
Deposit date:2008-09-02
Release date:2008-09-16
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal Structure of the HA3 Subcomponent of Clostridium botulinum Type C Progenitor Toxin
J.Mol.Biol., 385, 2009
6L9W
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BU of 6l9w by Molmil
Crystal structure of mouse TIFA (T9E/C36S mutant)
Descriptor: TRAF-interacting protein with FHA domain-containing protein A
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2019-11-11
Release date:2020-04-01
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity.
Sci Rep, 10, 2020
6L9V
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BU of 6l9v by Molmil
Crystal structure of mouse TIFA (T9D/C36S mutant)
Descriptor: TRAF-interacting protein with FHA domain-containing protein A
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2019-11-11
Release date:2020-04-01
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (3.05 Å)
Cite:Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity.
Sci Rep, 10, 2020
6L9U
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BU of 6l9u by Molmil
Crystal structure of mouse TIFA
Descriptor: TRAF-interacting protein with FHA domain-containing protein A
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2019-11-11
Release date:2020-04-01
Method:X-RAY DIFFRACTION (2.601 Å)
Cite:Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity.
Sci Rep, 10, 2020
6L0C
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BU of 6l0c by Molmil
Crystal structure of HIV-1 Integrase catalytic core domain (A128T/K173Q/F185K)
Descriptor: ARSENIC, Integrase, SULFATE ION
Authors:Nakamura, T, Nakamura, T.
Deposit date:2019-09-26
Release date:2020-07-01
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.101 Å)
Cite:A Conformational Escape Reaction of HIV-1 against an Allosteric Integrase Inhibitor.
J.Virol., 94, 2020
4XM0
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BU of 4xm0 by Molmil
N,N'-diacetylchitobiose deacetylase (SeMet derivative) from Pyrococcus furiosus in the absence of cadmium
Descriptor: Uncharacterized protein, ZINC ION
Authors:Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K.
Deposit date:2015-01-14
Release date:2015-06-10
Last modified:2019-12-18
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
4XM2
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BU of 4xm2 by Molmil
N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the absence of cadmium
Descriptor: Uncharacterized protein, ZINC ION
Authors:Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K.
Deposit date:2015-01-14
Release date:2015-06-10
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
4XLZ
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BU of 4xlz by Molmil
N,N'-diacetylchitobiose deacetylase (SeMet derivative) from Pyrococcus furiosus in the presence of cadmium
Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, CADMIUM ION, CHLORIDE ION, ...
Authors:Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K.
Deposit date:2015-01-14
Release date:2015-06-10
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (1.51 Å)
Cite:Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
4XM1
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BU of 4xm1 by Molmil
N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the presence of cadmium
Descriptor: CADMIUM ION, CHLORIDE ION, GLYCEROL, ...
Authors:Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K.
Deposit date:2015-01-14
Release date:2015-06-10
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
3AH4
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BU of 3ah4 by Molmil
HA1 subcomponent of botulinum type C progenitor toxin complexed with galactose
Descriptor: Main hemagglutinin component, beta-D-galactopyranose
Authors:Nakamura, T, Tonozuka, T, Ide, A, Yuzawa, T, Oguma, K, Nishikawa, A.
Deposit date:2010-04-13
Release date:2010-04-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.78 Å)
Cite:Sugar-binding sites of the HA1 subcomponent of Clostridium botulinum type C progenitor toxin
J.Mol.Biol., 376, 2008
2ZOE
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BU of 2zoe by Molmil
HA3 subcomponent of Clostridium botulinum type C progenitor toxin, complex with N-acetylneuramic acid
Descriptor: Hemagglutinin components HA3, N-acetyl-beta-neuraminic acid
Authors:Nakamura, T, Kotani, M, Tonozuka, T, Ide, A, Oguma, K, Nishikawa, A.
Deposit date:2008-05-09
Release date:2008-12-02
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal Structure of the HA3 Subcomponent of Clostridium botulinum Type C Progenitor Toxin
J.Mol.Biol., 385, 2009
5B2E
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BU of 5b2e by Molmil
N,N'-diacetylchitobiose deacetylase from Pyrococcus horikoshii complexed with its inhibitor MPG (acetate-containing condition)
Descriptor: 2-deoxy-2-{[(S)-hydroxy(methyl)phosphoryl]amino}-beta-D-glucopyranose, HEXANE-1,6-DIOL, Putative uncharacterized protein PH0499, ...
Authors:Nakamura, T, Niiyama, M, Ida, K, Uegaki, K.
Deposit date:2016-01-15
Release date:2016-08-10
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Substrate recognition of N,N'-diacetylchitobiose deacetylase from Pyrococcus horikoshii
J.Struct.Biol., 195, 2016
5B2F
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BU of 5b2f by Molmil
N,N'-diacetylchitobiose deacetylase from Pyrococcus horikoshii complexed with its inhibitor MPG (phosphate-containing condition)
Descriptor: 2-deoxy-2-{[(S)-hydroxy(methyl)phosphoryl]amino}-beta-D-glucopyranose, Putative uncharacterized protein PH0499, ZINC ION
Authors:Nakamura, T, Niiyama, M, Ida, K, Uegaki, K.
Deposit date:2016-01-15
Release date:2016-08-10
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Substrate recognition of N,N'-diacetylchitobiose deacetylase from Pyrococcus horikoshii
J.Struct.Biol., 195, 2016
2ZCT
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BU of 2zct by Molmil
Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate
Descriptor: Probable peroxiredoxin
Authors:Nakamura, T, Hagihara, Y, Abe, M, Inoue, T, Yamamoto, T, Matsumura, H.
Deposit date:2007-11-12
Release date:2008-05-27
Last modified:2021-11-10
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate
Proc.Natl.Acad.Sci.Usa, 105, 2008
8I1G
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BU of 8i1g by Molmil
Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dATP at pH 9.1
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, GLYCEROL, SODIUM ION, ...
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-01-13
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.18 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I18
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BU of 8i18 by Molmil
Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP at pH 7.7
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, SODIUM ION
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-01-13
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I19
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BU of 8i19 by Molmil
Crystal structure of human MTH1(G2K mutant) in complex with 8-oxo-dGTP at pH 8.0
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, 8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, SODIUM ION
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-01-13
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.48 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I8T
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BU of 8i8t by Molmil
Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dAMP and Mn2+
Descriptor: 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE, 7,8-dihydro-8-oxoguanine triphosphatase, MANGANESE (II) ION
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-02-05
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.22 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I1H
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BU of 8i1h by Molmil
Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dATP at pH 9.7
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, GLYCEROL, SODIUM ION
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-01-13
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.18 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I1E
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BU of 8i1e by Molmil
Crystal structure of human MTH1(G2K mutant) in complex with 2-oxo-dATP at pH 8.0
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-01-13
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023
8I1J
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BU of 8i1j by Molmil
Crystal structure of human MTH1(G2K/D120N mutant) in complex with 2-oxo-dATP at pH 9.7
Descriptor: 7,8-dihydro-8-oxoguanine triphosphatase, SODIUM ION, [[(2R,3S,5R)-5-(6-azanyl-2-oxidanylidene-1H-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate
Authors:Nakamura, T, Yamagata, Y.
Deposit date:2023-01-13
Release date:2023-03-22
Last modified:2023-07-26
Method:X-RAY DIFFRACTION (1.08 Å)
Cite:Protonation states of Asp residues in the human Nudix hydrolase MTH1 contribute to its broad substrate recognition.
Febs Lett., 597, 2023

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PDB entries from 2024-03-27

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