1J1F
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![BU of 1j1f by Molmil](/molmil-images/mine/1j1f) | Crystal structure of the RNase MC1 mutant N71T in complex with 5'-GMP | Descriptor: | GUANOSINE-5'-MONOPHOSPHATE, RIBONUCLEASE MC1 | Authors: | Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M. | Deposit date: | 2002-12-03 | Release date: | 2003-05-20 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | 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
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1J1G
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![BU of 1j1g by Molmil](/molmil-images/mine/1j1g) | Crystal structure of the RNase MC1 mutant N71S in complex with 5'-GMP | Descriptor: | GUANOSINE-5'-MONOPHOSPHATE, Ribonuclease MC1 | Authors: | Numata, T, Suzuki, A, Kakuta, Y, Kimura, K, Yao, M, Tanaka, I, Yoshida, Y, Ueda, T, Kimura, M. | Deposit date: | 2002-12-04 | Release date: | 2003-05-20 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | 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
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4QTS
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![BU of 4qts by Molmil](/molmil-images/mine/4qts) | |
3WIJ
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![BU of 3wij by Molmil](/molmil-images/mine/3wij) | Crystal structure of a plant class V chitinase mutant from Cycas revoluta in complex with (GlcNAc)3 | Descriptor: | 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, ... | Authors: | Numata, T, Osawa, T, Umemoto, N, Ohnuma, T, Fukamizo, T. | Deposit date: | 2013-09-13 | Release date: | 2014-09-17 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Crystal structure of a plant class V chitinase mutant from Cycas revoluta in complex with (GlcNAc)3 To be Published
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2DER
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![BU of 2der by Molmil](/molmil-images/mine/2der) | Cocrystal structure of an RNA sulfuration enzyme MnmA and tRNA-Glu in the initial tRNA binding state | Descriptor: | PHOSPHATE ION, SULFATE ION, tRNA, ... | Authors: | Numata, T, Ikeuchi, Y, Fukai, S, Suzuki, T, Nureki, O. | Deposit date: | 2006-02-17 | Release date: | 2006-08-15 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Snapshots of tRNA sulphuration via an adenylated intermediate Nature, 442, 2006
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2DET
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![BU of 2det by Molmil](/molmil-images/mine/2det) | Cocrystal structure of an RNA sulfuration enzyme MnmA and tRNA-Glu in the pre-reaction state | Descriptor: | SULFATE ION, tRNA, tRNA-specific 2-thiouridylase mnmA | Authors: | Numata, T, Ikeuchi, Y, Fukai, S, Suzuki, T, Nureki, O. | Deposit date: | 2006-02-17 | Release date: | 2006-08-15 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | Snapshots of tRNA sulphuration via an adenylated intermediate Nature, 442, 2006
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2DEU
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![BU of 2deu by Molmil](/molmil-images/mine/2deu) | Cocrystal structure of an RNA sulfuration enzyme MnmA and tRNA-Glu in the adenylated intermediate state | Descriptor: | ADENOSINE MONOPHOSPHATE, SULFATE ION, tRNA, ... | Authors: | Numata, T, Ikeuchi, Y, Fukai, S, Suzuki, T, Nureki, O. | Deposit date: | 2006-02-17 | Release date: | 2006-08-15 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | Snapshots of tRNA sulphuration via an adenylated intermediate Nature, 442, 2006
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2D1P
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![BU of 2d1p by Molmil](/molmil-images/mine/2d1p) | crystal structure of heterohexameric TusBCD proteins, which are crucial for the tRNA modification | Descriptor: | Hypothetical UPF0116 protein yheM, Hypothetical UPF0163 protein yheN, Hypothetical protein yheL, ... | Authors: | Numata, T, Fukai, S, Ikeuchi, Y, Suzuki, T, Nureki, O. | Deposit date: | 2005-08-30 | Release date: | 2006-02-28 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.15 Å) | Cite: | Structural Basis for Sulfur Relay to RNA Mediated by Heterohexameric TusBCD Complex Structure, 14, 2006
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1V76
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![BU of 1v76 by Molmil](/molmil-images/mine/1v76) | |
4DWX
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![BU of 4dwx by Molmil](/molmil-images/mine/4dwx) | Crystal Structure of a Family GH-19 Chitinase from rye seeds | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Basic endochitinase C, SULFATE ION, ... | Authors: | Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T. | Deposit date: | 2012-02-27 | Release date: | 2012-08-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structure and chitin oligosaccharide-binding mode of a 'loopful' family GH19 chitinase from rye, Secale cereale, seeds Febs J., 279, 2012
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4DYG
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![BU of 4dyg by Molmil](/molmil-images/mine/4dyg) | Crystal Structure of a Family GH-19 Chitinase from rye seeds in complex with (GlcNAc)4 | Descriptor: | 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, ... | Authors: | Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T. | Deposit date: | 2012-02-29 | Release date: | 2012-08-15 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Crystal structure and chitin oligosaccharide-binding mode of a 'loopful' family GH19 chitinase from rye, Secale cereale, seeds Febs J., 279, 2012
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4IJ4
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![BU of 4ij4 by Molmil](/molmil-images/mine/4ij4) | Crystal Structure of a Family GH19 chitinase from Bryum coronatum in complex with (GlcNAc)4 | Descriptor: | 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 | Authors: | Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T. | Deposit date: | 2012-12-21 | Release date: | 2014-03-26 | Last modified: | 2022-08-24 | Method: | X-RAY DIFFRACTION (1.58 Å) | Cite: | Crystal structure of a "loopless" GH19 chitinase in complex with chitin tetrasaccharide spanning the catalytic center. Biochim.Biophys.Acta, 1844, 2014
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6AE2
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![BU of 6ae2 by Molmil](/molmil-images/mine/6ae2) | |
6AE1
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![BU of 6ae1 by Molmil](/molmil-images/mine/6ae1) | |
1UCG
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![BU of 1ucg by Molmil](/molmil-images/mine/1ucg) | Crystal structure of Ribonuclease MC1 N71T mutant | Descriptor: | MANGANESE (II) ION, Ribonuclease MC | Authors: | Suzuki, A, Numata, T, Yao, M, Tanaka, I, Kimura, M. | Deposit date: | 2003-04-14 | Release date: | 2003-04-29 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | 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
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3WH1
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![BU of 3wh1 by Molmil](/molmil-images/mine/3wh1) | Crystal Structure of a Family GH19 Chitinase from Bryum coronatum in complex with (GlcNAc)4 at 1.0 A resolution | Descriptor: | 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 | Authors: | Numata, T, Umemoto, N, Ohnuma, T, Fukamizo, T. | Deposit date: | 2013-08-21 | Release date: | 2014-03-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1 Å) | Cite: | Crystal structure of a "loopless" GH19 chitinase in complex with chitin tetrasaccharide spanning the catalytic center. Biochim.Biophys.Acta, 1844, 2014
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6E1W
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![BU of 6e1w by Molmil](/molmil-images/mine/6e1w) | Crystal structure of a class I PreQ1 riboswitch complexed with PreQ1 | Descriptor: | 2-amino-5-(aminomethyl)-1,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one, ACETATE ION, MAGNESIUM ION, ... | Authors: | Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R. | Deposit date: | 2018-07-10 | Release date: | 2019-04-10 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.69 Å) | Cite: | Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure. Nat Commun, 10, 2019
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6E1V
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![BU of 6e1v by Molmil](/molmil-images/mine/6e1v) | 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 | Descriptor: | 2-[(9H-carbazol-3-yl)oxy]-N,N-dimethylethan-1-amine, RNA (33-MER) | Authors: | Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R. | Deposit date: | 2018-07-10 | Release date: | 2019-04-10 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.56 Å) | Cite: | Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure. Nat Commun, 10, 2019
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6E1S
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![BU of 6e1s by Molmil](/molmil-images/mine/6e1s) | 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 | Descriptor: | 2-[(dibenzo[b,d]furan-2-yl)oxy]ethan-1-amine, RNA (33-MER) | Authors: | Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R. | Deposit date: | 2018-07-10 | Release date: | 2019-04-10 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure. Nat Commun, 10, 2019
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6E1T
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![BU of 6e1t by Molmil](/molmil-images/mine/6e1t) | 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 | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 2-[(dibenzo[b,d]furan-2-yl)oxy]ethan-1-amine, MAGNESIUM ION, ... | Authors: | Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R. | Deposit date: | 2018-07-10 | Release date: | 2019-04-10 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure. Nat Commun, 10, 2019
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6E1U
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![BU of 6e1u by Molmil](/molmil-images/mine/6e1u) | 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 | Descriptor: | 2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine, MAGNESIUM ION, RNA (33-MER) | Authors: | Numata, T, Connelly, C.M, Schneekloth, J.S, Ferre-D'Amare, A.R. | Deposit date: | 2018-07-10 | Release date: | 2019-04-10 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.94 Å) | Cite: | Synthetic ligands for PreQ1riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure. Nat Commun, 10, 2019
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3W2V
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![BU of 3w2v by Molmil](/molmil-images/mine/3w2v) | |
3W2W
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![BU of 3w2w by Molmil](/molmil-images/mine/3w2w) | Crystal structure of the Cmr2dHD-Cmr3 subcomplex bound to ATP | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, CRISPR system Cmr subunit Cmr2, CRISPR system Cmr subunit Cmr3, ... | Authors: | Numata, T, Osawa, T. | Deposit date: | 2012-12-06 | Release date: | 2013-10-16 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Crystal Structure of the Cmr2-Cmr3 Subcomplex in the CRISPR-Cas RNA Silencing Effector Complex. J.Mol.Biol., 425, 2013
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7E9I
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![BU of 7e9i by Molmil](/molmil-images/mine/7e9i) | Crystal structure of a class I PreQ1 riboswitch aptamer (wild-type) complexed with a cognate ligand-derived photoaffinity probe | Descriptor: | 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 | Authors: | Numata, T, Schneekloth, J.S. | Deposit date: | 2021-03-04 | Release date: | 2021-11-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites. Nat Commun, 12, 2021
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7E9E
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![BU of 7e9e by Molmil](/molmil-images/mine/7e9e) | Crystal structure of a class I PreQ1 riboswitch aptamer (ab13-14) complexed with a cognate ligand-derived photoaffinity probe | Descriptor: | 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, ... | Authors: | Numata, T, Schneekloth, J.S. | Deposit date: | 2021-03-04 | Release date: | 2021-11-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.57 Å) | Cite: | A chemical probe based on the PreQ 1 metabolite enables transcriptome-wide mapping of binding sites. Nat Commun, 12, 2021
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