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PDB: 63 件
1J1G
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Crystal structure of the RNase MC1 mutant N71S in complex with 5'-GMP
分子名称: GUANOSINE-5'-MONOPHOSPHATE, Ribonuclease MC1
著者Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M.
登録日2002-12-04
公開日2003-05-20
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity
Biochemistry, 42, 2003
1J1F
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Crystal structure of the RNase MC1 mutant N71T in complex with 5'-GMP
分子名称: GUANOSINE-5'-MONOPHOSPHATE, RIBONUCLEASE MC1
著者Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M.
登録日2002-12-03
公開日2003-05-20
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.6 Å)
主引用文献Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity
Biochemistry, 42, 2003
4DWX
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Crystal Structure of a Family GH-19 Chitinase from rye seeds
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Basic endochitinase C, SULFATE ION, ...
著者Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T.
登録日2012-02-27
公開日2012-08-15
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Crystal structure and chitin oligosaccharide-binding mode of a 'loopful' family GH19 chitinase from rye, Secale cereale, seeds
Febs J., 279, 2012
4DYG
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Crystal Structure of a Family GH-19 Chitinase from rye seeds in complex with (GlcNAc)4
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Basic endochitinase C, ...
著者Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T.
登録日2012-02-29
公開日2012-08-15
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Crystal structure and chitin oligosaccharide-binding mode of a 'loopful' family GH19 chitinase from rye, Secale cereale, seeds
Febs J., 279, 2012
4IJ4
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Crystal Structure of a Family GH19 chitinase from Bryum coronatum in complex with (GlcNAc)4
分子名称: 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Chitinase A
著者Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T.
登録日2012-12-21
公開日2014-03-26
最終更新日2022-08-24
実験手法X-RAY DIFFRACTION (1.58 Å)
主引用文献Crystal structure of a "loopless" GH19 chitinase in complex with chitin tetrasaccharide spanning the catalytic center.
Biochim.Biophys.Acta, 1844, 2014
4QTS
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Crystal structure of Csm3-Csm4 subcomplex in the type III-A CRISPR-Cas interference complex
分子名称: CRISPR type III-associated RAMP protein Csm3, CRISPR type III-associated RAMP protein Csm4, ZINC ION
著者Numata, T, Inanaga, H, Osawa, T.
登録日2014-07-09
公開日2014-12-24
最終更新日2024-05-29
実験手法X-RAY DIFFRACTION (3.105 Å)
主引用文献Crystal structure of the Csm3-Csm4 subcomplex in the type III-A CRISPR-Cas interference complex.
J.Mol.Biol., 427, 2015
6AE2
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Crystal structure of Csm3 of the type III-A CRISPR-Cas effector complex
分子名称: Csm3
著者Numata, T.
登録日2018-08-03
公開日2019-01-23
最終更新日2024-03-27
実験手法X-RAY DIFFRACTION (2.701 Å)
主引用文献Crystal Structures of Csm2 and Csm3 in the Type III-A CRISPR-Cas Effector Complex.
J. Mol. Biol., 431, 2019
6AE1
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Crystal structure of Csm2 of the type III-A CRISPR-Cas effector complex
分子名称: CRISPR-associated protein, TM1810 family
著者Numata, T.
登録日2018-08-03
公開日2019-01-23
最終更新日2019-02-27
実験手法X-RAY DIFFRACTION (2.405 Å)
主引用文献Crystal Structures of Csm2 and Csm3 in the Type III-A CRISPR-Cas Effector Complex.
J. Mol. Biol., 431, 2019
3WIJ
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Crystal structure of a plant class V chitinase mutant from Cycas revoluta in complex with (GlcNAc)3
分子名称: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, ...
著者Numata, T, Osawa, T, Umemoto, N, Ohnuma, T, Fukamizo, T.
登録日2013-09-13
公開日2014-09-17
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.3 Å)
主引用文献Crystal structure of a plant class V chitinase mutant from Cycas revoluta in complex with (GlcNAc)3
To be Published
3WH1
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Crystal Structure of a Family GH19 Chitinase from Bryum coronatum in complex with (GlcNAc)4 at 1.0 A resolution
分子名称: 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Chitinase A
著者Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T.
登録日2013-08-21
公開日2014-03-26
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1 Å)
主引用文献Crystal structure of a "loopless" GH19 chitinase in complex with chitin tetrasaccharide spanning the catalytic center.
Biochim.Biophys.Acta, 1844, 2014
3W2W
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Crystal structure of the Cmr2dHD-Cmr3 subcomplex bound to ATP
分子名称: ADENOSINE-5'-TRIPHOSPHATE, CRISPR system Cmr subunit Cmr2, CRISPR system Cmr subunit Cmr3, ...
著者Numata, T, Osawa, T.
登録日2012-12-06
公開日2013-10-16
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.5 Å)
主引用文献Crystal Structure of the Cmr2-Cmr3 Subcomplex in the CRISPR-Cas RNA Silencing Effector Complex.
J.Mol.Biol., 425, 2013
3W2V
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BU of 3w2v by Molmil
Crystal structure of the Cmr2dHD-Cmr3 subcomplex bound to 3'-AMP
分子名称: CRISPR system Cmr subunit Cmr2, CRISPR system Cmr subunit Cmr3, ZINC ION, ...
著者Numata, T, Osawa, T.
登録日2012-12-06
公開日2013-10-16
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.6 Å)
主引用文献Crystal Structure of the Cmr2-Cmr3 Subcomplex in the CRISPR-Cas RNA Silencing Effector Complex.
J.Mol.Biol., 425, 2013
6E1V
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Crystal structure of a class I PreQ1 riboswitch complexed with a synthetic compound 3: 2-[(9H-carbazol-3-yl)oxy]-N,N-dimethylethan-1-amine
分子名称: 2-[(9H-carbazol-3-yl)oxy]-N,N-dimethylethan-1-amine, RNA (33-MER)
著者Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R.
登録日2018-07-10
公開日2019-04-10
最終更新日2023-10-11
実験手法X-RAY DIFFRACTION (2.56 Å)
主引用文献Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure.
Nat Commun, 10, 2019
6E1W
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Crystal structure of a class I PreQ1 riboswitch complexed with PreQ1
分子名称: 2-amino-5-(aminomethyl)-1,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one, ACETATE ION, MAGNESIUM ION, ...
著者Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R.
登録日2018-07-10
公開日2019-04-10
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.69 Å)
主引用文献Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure.
Nat Commun, 10, 2019
6E1S
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Crystal structure of a class I PreQ1 riboswitch complexed with a synthetic compound 1: 2-[(dibenzo[b,d]furan-2-yl)oxy]ethan-1-amine
分子名称: 2-[(dibenzo[b,d]furan-2-yl)oxy]ethan-1-amine, RNA (33-MER)
著者Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R.
登録日2018-07-10
公開日2019-04-10
最終更新日2023-10-11
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure.
Nat Commun, 10, 2019
6E1T
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BU of 6e1t by Molmil
Crystal structure of a class I PreQ1 riboswitch complexed with a synthetic compound 1: 2-[(dibenzo[b,d]furan-2-yl)oxy]ethan-1-amine
分子名称: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 2-[(dibenzo[b,d]furan-2-yl)oxy]ethan-1-amine, MAGNESIUM ION, ...
著者Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R.
登録日2018-07-10
公開日2019-04-10
最終更新日2023-10-11
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure.
Nat Commun, 10, 2019
6E1U
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Crystal structure of a class I PreQ1 riboswitch complexed with a synthetic compound 2: 2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine
分子名称: 2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine, MAGNESIUM ION, RNA (33-MER)
著者Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R.
登録日2018-07-10
公開日2019-04-10
最終更新日2023-10-11
実験手法X-RAY DIFFRACTION (1.94 Å)
主引用文献Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure.
Nat Commun, 10, 2019
2DER
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BU of 2der by Molmil
Cocrystal structure of an RNA sulfuration enzyme MnmA and tRNA-Glu in the initial tRNA binding state
分子名称: PHOSPHATE ION, SULFATE ION, tRNA, ...
著者Numata, T, Ikeuchi, Y, Fukai, S, Suzuki, T, Nureki, O.
登録日2006-02-17
公開日2006-08-15
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Snapshots of tRNA sulphuration via an adenylated intermediate
Nature, 442, 2006
2DET
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Cocrystal structure of an RNA sulfuration enzyme MnmA and tRNA-Glu in the pre-reaction state
分子名称: SULFATE ION, tRNA, tRNA-specific 2-thiouridylase mnmA
著者Numata, T, Ikeuchi, Y, Fukai, S, Suzuki, T, Nureki, O.
登録日2006-02-17
公開日2006-08-15
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (3.4 Å)
主引用文献Snapshots of tRNA sulphuration via an adenylated intermediate
Nature, 442, 2006
2D1P
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crystal structure of heterohexameric TusBCD proteins, which are crucial for the tRNA modification
分子名称: Hypothetical UPF0116 protein yheM, Hypothetical UPF0163 protein yheN, Hypothetical protein yheL, ...
著者Numata, T, Fukai, S, Ikeuchi, Y, Suzuki, T, Nureki, O.
登録日2005-08-30
公開日2006-02-28
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.15 Å)
主引用文献Structural Basis for Sulfur Relay to RNA Mediated by Heterohexameric TusBCD Complex
Structure, 14, 2006
2DEU
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Cocrystal structure of an RNA sulfuration enzyme MnmA and tRNA-Glu in the adenylated intermediate state
分子名称: ADENOSINE MONOPHOSPHATE, SULFATE ION, tRNA, ...
著者Numata, T, Ikeuchi, Y, Fukai, S, Suzuki, T, Nureki, O.
登録日2006-02-17
公開日2006-08-15
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (3.4 Å)
主引用文献Snapshots of tRNA sulphuration via an adenylated intermediate
Nature, 442, 2006
7E9I
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Crystal structure of a class I PreQ1 riboswitch aptamer (wild-type) complexed with a cognate ligand-derived photoaffinity probe
分子名称: 2-azanyl-5-[[2-(3-but-3-ynyl-1,2-diazirin-3-yl)ethylamino]methyl]-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one, 33-mer RNA, SULFATE ION
著者Numata, T, Schneekloth, J.S.
登録日2021-03-04
公開日2021-11-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.8 Å)
主引用文献A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites.
Nat Commun, 12, 2021
7E9E
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Crystal structure of a class I PreQ1 riboswitch aptamer (ab13-14) complexed with a cognate ligand-derived photoaffinity probe
分子名称: 2-azanyl-5-[[2-(3-but-3-ynyl-1,2-diazirin-3-yl)ethylamino]methyl]-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one, 33-mer RNA, MAGNESIUM ION, ...
著者Numata, T, Schneekloth, J.S.
登録日2021-03-04
公開日2021-11-17
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.57 Å)
主引用文献A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites.
Nat Commun, 12, 2021
1V76
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Crystal Structure of Archaeal Ribonuclease P Protein Ph1771p from Pyrococcus horikoshii OT3
分子名称: RNase P protein Ph1771p, SULFATE ION
著者Numata, T, Kakuta, Y, Kimura, M.
登録日2003-12-12
公開日2004-10-05
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (2 Å)
主引用文献Crystal structure of archaeal ribonuclease P protein Ph1771p from Pyrococcus horikoshii OT3: an archaeal homolog of eukaryotic ribonuclease P protein Rpp29
Rna, 10, 2004
3ALF
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Crystal Structure of Class V Chitinase from Nicotiana tobaccum
分子名称: 1,2-ETHANEDIOL, Chitinase, class V, ...
著者Numata, T, Osawa, T, Ohnuma, T, Fukamizo, T.
登録日2010-08-03
公開日2011-03-23
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.2 Å)
主引用文献Crystal structure and mode of action of a class V chitinase from Nicotiana tabacum
Plant Mol.Biol., 75, 2011

 

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