Author results

1MGT
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CRYSTAL STRUCTURE OF O6-METHYLGUANINE-DNA METHYLTRANSFERASE FROM HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS KODAKARAENSIS STRAIN KOD1
Descriptor:PROTEIN (O6-METHYLGUANINE-DNA METHYLTRANSFERASE), SULFATE ION
Authors:Hashimoto, H., Inoue, T., Nishioka, M., Fujiwara, S., Takagi, M., Imanaka, T., Kai, Y.
Deposit date:1999-01-12
Release date:2000-01-07
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Hyperthermostable protein structure maintained by intra and inter-helix ion-pairs in archaeal O6-methylguanine-DNA methyltransferase.
J.Mol.Biol., 292, 1999
3F8I
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MOUSE UHRF1 SRA DOMAIN BOUND WITH HEMI-METHYLATED CPG, CRYSTAL STRUCTURE IN SPACE GROUP P21
Descriptor:E3 ubiquitin-protein ligase UHRF1, 5'-D(*DCP*DCP*DAP*DTP*DGP*(5CM)P*DGP*DCP*DTP*DGP*DAP*DC)-3', 5'-D(*DGP*DTP*DCP*DAP*DGP*DCP*DGP*DCP*DAP*DTP*DGP*DG)-3'
Authors:Hashimoto, H., Horton, J.R., Zhang, X., Cheng, X.
Deposit date:2008-11-12
Release date:2009-01-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.29 Å)
Cite:UHRF1, a modular multi-domain protein, regulates replication-coupled crosstalk between DNA methylation and histone modifications.
Epigenetics, 4, 2009
3F8J
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MOUSE UHRF1 SRA DOMAIN BOUND WITH HEMI-METHYLATED CPG, CRYSTAL STRUCTURE IN SPACE GROUP C222(1)
Descriptor:E3 ubiquitin-protein ligase UHRF1, 5'-D(*DCP*DCP*DAP*DTP*DGP*(5CM)P*DGP*DCP*DTP*DGP*DAP*DC)-3', 5'-D(*DGP*DTP*DCP*DAP*DGP*DCP*DGP*DCP*DAP*DTP*DGP*DG)-3', ...
Authors:Hashimoto, H., Horton, J.R., Zhang, X., Cheng, X.
Deposit date:2008-11-12
Release date:2009-01-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:UHRF1, a modular multi-domain protein, regulates replication-coupled crosstalk between DNA methylation and histone modifications.
Epigenetics, 4, 2009
3FDE
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MOUSE UHRF1 SRA DOMAIN BOUND WITH HEMI-METHYLATED CPG DNA, CRYSTAL STRUCTURE IN SPACE GROUP C222(1) AT 1.4 A RESOLUTION
Descriptor:E3 ubiquitin-protein ligase UHRF1, 5'-D(*CP*CP*AP*TP*GP*(5CM)P*GP*CP*TP*GP*AP*C)-3', 5'-D(*GP*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3', ...
Authors:Hashimoto, H., Horton, J.R., Zhang, X., Cheng, X.
Deposit date:2008-11-25
Release date:2009-01-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.41 Å)
Cite:UHRF1, a modular multi-domain protein, regulates replication-coupled crosstalk between DNA methylation and histone modifications.
Epigenetics, 4, 2009
1UF4
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CRYSTAL STRUCTURE OF C171A/V236A MUTANT OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE
Descriptor:N-carbamyl-D-amino acid amidohydrolase
Authors:Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.
Deposit date:2003-05-23
Release date:2004-06-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid
To be published
1UF5
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CRYSTAL STRUCTURE OF C171A/V236A MUTANT OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE COMPLEXED WITH N-CARBAMYL-D-METHIONINE
Descriptor:N-carbamyl-D-amino acid amidohydrolase, 4-METHYLSULFANYL-2-UREIDO-BUTYRIC ACID, 1,2-ETHANEDIOL
Authors:Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.
Deposit date:2003-05-23
Release date:2004-06-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal structure of C171A/V236A mutant of N-carbamyl-D-amino acid amidohydrolase
To be published
1UF7
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CRYSTAL STRUCTURE OF C171A/V236A MUTANT OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE COMPLEXED WITH N-CARBAMYL-D-VALINE
Descriptor:N-carbamyl-D-amino acid amidohydrolase, 3-METHYL-2-UREIDO-BUTYRIC ACID
Authors:Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.
Deposit date:2003-05-26
Release date:2004-06-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase
To be published
1UF8
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CRYSTAL STRUCTURE OF C171A/V236A MUTANT OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE COMPLEXED WITH N-CARBAMYL-D-PHENYLALANINE
Descriptor:N-carbamyl-D-amino acid amidohydrolase, D-[(AMINO)CARBONYL]PHENYLALANINE
Authors:Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.
Deposit date:2003-05-26
Release date:2004-06-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase
To be published
1WNS
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CRYSTAL STRUCTURE OF FAMILY B DNA POLYMERASE FROM HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS KODAKARAENSIS KOD1
Descriptor:DNA POLYMERASE
Authors:Hashimoto, H., Inoue, T., Kai, Y., Fujiwara, S., Takagi, M., Nishioka, M., Imanaka, T.
Deposit date:2004-08-09
Release date:2004-08-17
Last modified:2017-08-16
Method:X-RAY DIFFRACTION (3 Å)
Cite:Crystal Structure of DNA Polymerase from Hyperthermophilic Archaeon Pyrococcus Kodakaraensis Kod1
J.Mol.Biol., 306, 2001
1WTD
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CRYSTAL STRUCTURE OF TYPE II RESTRCITION ENDONUCLEASE, ECOO109I DNA-FREE FORM
Descriptor:EcoO109IR, GLYCEROL
Authors:Hashimoto, H., Shimizu, T., Imasaki, T., Kato, M., Shichijo, N., Kita, K., Sato, M.
Deposit date:2004-11-22
Release date:2004-12-14
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.401 Å)
Cite:Crystal structures of type II restriction endonuclease EcoO109I and its complex with cognate DNA
J.Biol.Chem., 280, 2005
1WTE
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CRYSTAL STRUCTURE OF TYPE II RESTRCITION ENDONUCLEASE, ECOO109I COMPLEXED WITH COGNATE DNA
Descriptor:5'-D(*AP*CP*CP*GP*GP*GP*CP*CP*CP*TP*GP*CP*C)-3', 5'-D(*GP*GP*CP*AP*GP*GP*GP*CP*CP*CP*GP*GP*T)-3', EcoO109IR, ...
Authors:Hashimoto, H., Shimizu, T., Imasaki, T., Kato, M., Shichijo, N., Kita, K., Sato, M.
Deposit date:2004-11-22
Release date:2004-12-14
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structures of type II restriction endonuclease EcoO109I and its complex with cognate DNA
J.Biol.Chem., 280, 2005
2COV
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CRYSTAL STRUCTURE OF CBM31 FROM BETA-1,3-XYLANASE
Descriptor:beta-1,3-xylanase
Authors:Hashimoto, H., Tamai, Y., Okazaki, F., Tamaru, Y., Shimizu, T., Araki, T., Sato, M.
Deposit date:2005-05-18
Release date:2005-09-13
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.25 Å)
Cite:The first crystal structure of a family 31 carbohydrate-binding module with affinity to beta-1,3-xylan
Febs Lett., 579, 2005
2ZO0
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MOUSE NP95 SRA DOMAIN DNA SPECIFIC COMPLEX 1
Descriptor:E3 ubiquitin-protein ligase UHRF1, DNA (5'-D(*DTP*DCP*DCP*DAP*DTP*DGP*DCP*DGP*DCP*DTP*DGP*DAP*DC)-3'), DNA (5'-D(*DGP*DTP*DCP*DAP*DGP*(5CM)P*DGP*DCP*DAP*DAP*DTP*DGP*DG)-3')
Authors:Hashimoto, H., Horton, J.R., Cheng, X.
Deposit date:2008-05-05
Release date:2008-09-09
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.19 Å)
Cite:The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix
Nature, 455, 2008
2ZO1
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MOUSE NP95 SRA DOMAIN DNA SPECIFIC COMPLEX 2
Descriptor:DNA (5'-D(*DTP*DCP*DCP*DAP*DTP*DGP*DCP*DGP*DCP*DTP*DGP*DAP*DC)-3'), DNA (5'-D(*DGP*DTP*DCP*DAP*DGP*(5CM)P*DGP*DCP*DAP*DAP*DTP*DGP*DG)-3'), E3 ubiquitin-protein ligase UHRF1, ...
Authors:Hashimoto, H., Horton, J.R., Cheng, X.
Deposit date:2008-05-05
Release date:2008-09-09
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.96 Å)
Cite:The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix
Nature, 455, 2008
2ZO2
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MOUSE NP95 SRA DOMAIN NON-SPECIFIC DNA COMPLEX
Descriptor:E3 ubiquitin-protein ligase UHRF1, DNA (5'-D(*DAP*DAP*DCP*DTP*DGP*DCP*DGP*DCP*DAP*DGP*DTP*DT)-3'), PHOSPHATE ION
Authors:Hashimoto, H., Horton, J.R., Cheng, X.
Deposit date:2008-05-05
Release date:2008-09-09
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.09 Å)
Cite:The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix
Nature, 455, 2008
3ALR
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CRYSTAL STRUCTURE OF NANOS
Descriptor:Nanos protein, ZINC ION
Authors:Hashimoto, H., Hara, K., Hishiki, A., Kawaguchi, S., Shichijo, N., Nakamura, K., Unzai, S., Tamaru, Y., Shimizu, T., Sato, M.
Deposit date:2010-08-06
Release date:2011-02-02
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of zinc-finger domain of Nanos and its functional implications
Embo Rep., 11, 2010
3AYU
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CRYSTAL STRUCTURE OF MMP-2 ACTIVE SITE MUTANT IN COMPLEX WITH APP-DRIVED DECAPEPTIDE INHIBITOR
Descriptor:72 kDa type IV collagenase, Amyloid beta A4 protein, ZINC ION, ...
Authors:Hashimoto, H., Takeuchi, T., Komatsu, K., Miyazaki, K., Sato, M., Higashi, S.
Deposit date:2011-05-17
Release date:2011-08-03
Last modified:2017-08-09
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural basis for matrix metalloproteinase-2 (MMP-2)-selective inhibitory action of {beta}-amyloid precursor protein-derived inhibitor
J.Biol.Chem., 2011
3SWR
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STRUCTURE OF HUMAN DNMT1 (601-1600) IN COMPLEX WITH SINEFUNGIN
Descriptor:DNA (cytosine-5)-methyltransferase 1, SINEFUNGIN, SULFATE ION, ...
Authors:Hashimoto, H., Cheng, X.
Deposit date:2011-07-14
Release date:2011-08-10
Method:X-RAY DIFFRACTION (2.49 Å)
Cite:Structure of human DNMT1 (residues 600-1600) in complex with Sinefungin
To be Published
4EVV
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MOUSE MBD4 GLYCOSYLASE DOMAIN IN COMPLEX WITH A G:T MISMATCH
Descriptor:Methyl-CpG-binding domain protein 4, DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), DNA (5'-D(*CP*CP*AP*TP*GP*TP*GP*CP*TP*GP*A)-3'), ...
Authors:Hashimoto, H., Zhang, X., Cheng, X.
Deposit date:2012-04-26
Release date:2012-07-11
Last modified:2012-10-10
Method:X-RAY DIFFRACTION (2.39 Å)
Cite:Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
4EW0
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MOUSE MBD4 GLYCOSYLASE DOMAIN IN COMPLEX WITH A G:5HMU (5-HYDROXYMETHYLURACIL) MISMATCH
Descriptor:Methyl-CpG-binding domain protein 4, DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), DNA (5'-D(*CP*CP*AP*TP*GP*(5HU)P*GP*CP*TP*GP*A)-3'), ...
Authors:Hashimoto, H., Zhang, X., Cheng, X.
Deposit date:2012-04-26
Release date:2012-07-11
Last modified:2012-10-10
Method:X-RAY DIFFRACTION (2.39 Å)
Cite:Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
4EW4
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MOUSE MBD4 GLYCOSYLASE DOMAIN IN COMPLEX WITH DNA CONTAINING A RIBOSE SUGAR
Descriptor:Methyl-CpG-binding domain protein 4, DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), DNA (5'-D(*CP*CP*AP*TP*GP*(3DR)P*GP*CP*TP*GP*A)-3'), ...
Authors:Hashimoto, H., Zhang, X., Cheng, X.
Deposit date:2012-04-26
Release date:2012-07-11
Last modified:2017-12-27
Method:X-RAY DIFFRACTION (2.791 Å)
Cite:Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
4FNC
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HUMAN TDG IN A POST-REACTIVE COMPLEX WITH 5-HYDROXYMETHYLURACIL (5HMU)
Descriptor:G/T mismatch-specific thymine DNA glycosylase, DNA (28-MER), DNA (29-MER), ...
Authors:Hashimoto, H., Hong, S., Bhagwat, A.S., Zhang, X., Cheng, X.
Deposit date:2012-06-19
Release date:2012-09-19
Last modified:2014-07-09
Method:X-RAY DIFFRACTION (2.493 Å)
Cite:Excision of 5-hydroxymethyluracil and 5-carboxylcytosine by the thymine DNA glycosylase domain: its structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
4JGC
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HUMAN TDG N140A MUTANT IN A COMPLEX WITH 5-CARBOXYLCYTOSINE (5CAC)
Descriptor:G/T mismatch-specific thymine DNA glycosylase, oligonucleotide, oligonucleotide containing 5-carboxylcytosine, ...
Authors:Hashimoto, H., Zhang, X., Cheng, X.
Deposit date:2013-02-28
Release date:2013-05-29
Last modified:2013-07-03
Method:X-RAY DIFFRACTION (2.582 Å)
Cite:Activity and crystal structure of human thymine DNA glycosylase mutant N140A with 5-carboxylcytosine DNA at low pH.
Dna Repair, 12, 2013
4LT5
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STRUCTURE OF A NAEGLERIA TET-LIKE DIOXYGENASE IN COMPLEX WITH 5-METHYLCYTOSINE DNA
Descriptor:Naegleria Tet-like dioxygenase, DNA, MANGANESE (II) ION, ...
Authors:Hashimoto, H., Pais, J.E., Zhang, X., Saleh, L., Fu, Z.Q., Dai, N., Correa, I.R., Roberts, R.J., Zheng, Y., Cheng, X.
Deposit date:2013-07-23
Release date:2013-12-18
Last modified:2017-11-15
Method:X-RAY DIFFRACTION (2.893 Å)
Cite:Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA.
Nature, 506, 2014
4R2A
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EGR1/ZIF268 ZINC FINGERS IN COMPLEX WITH METHYLATED DNA
Descriptor:Early growth response protein 1, DNA (5'-D(*AP*GP*CP*GP*TP*GP*GP*GP*(5CM)P*GP*T)-3'), DNA (5'-D(*TP*AP*(5CM)P*GP*CP*CP*CP*AP*CP*GP*C)-3'), ...
Authors:Hashimoto, H., Olanrewaju, Y.O., Zheng, Y., Wilson, G.G., Zhang, X., Cheng, X.
Deposit date:2014-08-11
Release date:2014-10-08
Last modified:2014-11-19
Method:X-RAY DIFFRACTION (1.591 Å)
Cite:Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence.
Genes Dev., 28, 2014