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1V2X
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BU of 1v2x by Molmil
TrmH
Descriptor: PHOSPHATE ION, S-ADENOSYLMETHIONINE, tRNA (Gm18) methyltransferase
Authors:Nureki, O, Watanabe, K, Fukai, S, Ishii, R, Endo, Y, Hori, H, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-10-17
Release date:2004-05-04
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Deep Knot Structure for Construction of Active Site and Cofactor Binding Site of tRNA Modification Enzyme
STRUCTURE, 12, 2004
1GLN
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BU of 1gln by Molmil
ARCHITECTURES OF CLASS-DEFINING AND SPECIFIC DOMAINS OF GLUTAMYL-TRNA SYNTHETASE
Descriptor: GLUTAMYL-TRNA SYNTHETASE
Authors:Nureki, O, Vassylyev, D.G, Katayanagi, K, Shimizu, T, Sekine, S, Kigawa, T, Miyazawa, T, Yokoyama, S, Morikawa, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1994-07-20
Release date:1995-10-15
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Architectures of class-defining and specific domains of glutamyl-tRNA synthetase.
Science, 267, 1995
1IPA
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BU of 1ipa by Molmil
CRYSTAL STRUCTURE OF RNA 2'-O RIBOSE METHYLTRANSFERASE
Descriptor: RNA 2'-O-RIBOSE METHYLTRANSFERASE
Authors:Nureki, O, Shirouzu, M, Hashimoto, K, Ishitani, R, Terada, T, Tamakoshi, M, Oshima, T, Chijimatsu, M, Takio, K, Vassylyev, D.G, Shibata, T, Inoue, Y, Kuramitsu, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-05-02
Release date:2002-07-10
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:An enzyme with a deep trefoil knot for the active-site architecture.
Acta Crystallogr.,Sect.D, 58, 2002
1ILE
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BU of 1ile by Molmil
ISOLEUCYL-TRNA SYNTHETASE
Descriptor: ISOLEUCYL-TRNA SYNTHETASE, ZINC ION
Authors:Nureki, O, Vassylyev, D.G, Tateno, M, Shimada, A, Nakama, T, Fukai, S, Konno, M, Schimmel, P, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1998-02-24
Release date:1999-04-13
Last modified:2024-10-30
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Enzyme structure with two catalytic sites for double-sieve selection of substrate.
Science, 280, 1998
3AII
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BU of 3aii by Molmil
Archaeal non-discriminating glutamyl-tRNA synthetase from Methanothermobacter thermautotrophicus
Descriptor: 1,2-ETHANEDIOL, ACETIC ACID, CALCIUM ION, ...
Authors:Nureki, O, Ishitani, R.
Deposit date:2010-05-14
Release date:2010-08-04
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Structure of an archaeal non-discriminating glutamyl-tRNA synthetase: a missing link in the evolution of Gln-tRNAGln formation
Nucleic Acids Res., 2010
1UEV
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BU of 1uev by Molmil
Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, MAGNESIUM ION, ...
Authors:Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-05-21
Release date:2003-12-02
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure.
Embo J., 22, 2003
1UET
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BU of 1uet by Molmil
Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure
Descriptor: ACETATE ION, CALCIUM ION, MAGNESIUM ION, ...
Authors:Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-05-21
Release date:2003-12-02
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure.
Embo J., 22, 2003
1UEU
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BU of 1ueu by Molmil
Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure
Descriptor: ACETATE ION, CYTIDINE-5'-TRIPHOSPHATE, MAGNESIUM ION, ...
Authors:Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-05-21
Release date:2003-12-02
Last modified:2024-12-25
Method:X-RAY DIFFRACTION (2 Å)
Cite:Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure.
Embo J., 22, 2003
2D6F
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BU of 2d6f by Molmil
Crystal structure of Glu-tRNA(Gln) amidotransferase in the complex with tRNA(Gln)
Descriptor: Glutamyl-tRNA(Gln) amidotransferase subunit D, Glutamyl-tRNA(Gln) amidotransferase subunit E, ZINC ION, ...
Authors:Nureki, O.
Deposit date:2005-11-13
Release date:2006-07-11
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (3.15 Å)
Cite:Structural basis of RNA-dependent recruitment of glutamine to the genetic code
Science, 312, 2006
1IRX
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BU of 1irx by Molmil
Crystal structure of class I lysyl-tRNA synthetase
Descriptor: ZINC ION, lysyl-tRNA synthetase
Authors:Nureki, O, Terada, T, Ishitani, R, Ambrogelly, A, Ibba, M, Soll, D, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-10-25
Release date:2002-04-17
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Functional convergence of two lysyl-tRNA synthetases with unrelated topologies.
Nat.Struct.Biol., 9, 2002
2ZY9
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BU of 2zy9 by Molmil
Improved crystal structure of magnesium transporter MgtE
Descriptor: MAGNESIUM ION, Mg2+ transporter MgtE
Authors:Nureki, O, Ishitani, R, Hattori, M.
Deposit date:2009-01-19
Release date:2009-12-01
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.94 Å)
Cite:Mg(2+)-dependent gating of bacterial MgtE channel underlies Mg(2+) homeostasis
Embo J., 28, 2009
1N77
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BU of 1n77 by Molmil
Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with tRNA(Glu) and ATP.
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, Glutamyl-tRNA synthetase, MAGNESIUM ION, ...
Authors:Sekine, S, Nureki, O, Dubois, D.Y, Bernier, S, Chenevert, R, Lapointe, J, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-13
Release date:2003-02-25
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
1N78
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BU of 1n78 by Molmil
Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with tRNA(Glu) and glutamol-AMP.
Descriptor: GLUTAMOL-AMP, Glutamyl-tRNA synthetase, MAGNESIUM ION, ...
Authors:Sekine, S, Nureki, O, Dubois, D.Y, Bernier, S, Chenevert, R, Lapointe, J, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-13
Release date:2003-02-25
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
1N75
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BU of 1n75 by Molmil
Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with ATP.
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, Glutamyl-tRNA synthetase, MAGNESIUM ION
Authors:Sekine, S, Nureki, O, Dubois, D.Y, Bernier, S, Chenevert, R, Lapointe, J, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-11-12
Release date:2003-02-25
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding
EMBO J., 22, 2003
4WIB
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BU of 4wib by Molmil
Crystal structure of Magnesium transporter MgtE
Descriptor: CALCIUM ION, Magnesium transporter MgtE
Authors:Takeda, H, Hattori, M, Nishizawa, T, Yamashita, K, Shah, S.T.A, Caffrey, M, Maturana, A.D, Ishitani, R, Nureki, O.
Deposit date:2014-09-25
Release date:2014-12-03
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structural basis for ion selectivity revealed by high-resolution crystal structure of Mg(2+) channel MgtE
Nat Commun, 5, 2014
1KN0
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BU of 1kn0 by Molmil
Crystal Structure of the human Rad52 protein
Descriptor: Rad52
Authors:Kagawa, W, Kurumizaka, H, Ishitani, R, Fukai, S, Nureki, O, Shibata, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-12-18
Release date:2002-09-04
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Crystal structure of the homologous-pairing domain from the human Rad52 recombinase in the undecameric form.
Mol.Cell, 10, 2002
3S7T
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BU of 3s7t by Molmil
Crystal structure of SeMet B. licheniformis CDPS YvmC-Blic
Descriptor: Putative uncharacterized protein yvmC
Authors:Bonnefond, L, Ishitani, R, Nureki, O.
Deposit date:2011-05-26
Release date:2011-06-22
Last modified:2024-10-30
Method:X-RAY DIFFRACTION (2.808 Å)
Cite:Structural basis for nonribosomal peptide synthesis by an aminoacyl-tRNA synthetase paralog.
Proc.Natl.Acad.Sci.USA, 108, 2011
8HIN
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BU of 8hin by Molmil
Structure of human SGLT2-MAP17 complex with Phlorizin
Descriptor: 1-[2-[(2S,3R,4S,5S,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,6-bis(oxidanyl)phenyl]-3-(4-hydroxyphenyl)propan-1-one, 2-acetamido-2-deoxy-beta-D-glucopyranose, PDZK1-interacting protein 1, ...
Authors:Hiraizumi, M, Kishida, H, Miyaguchi, I, Nureki, O.
Deposit date:2022-11-21
Release date:2023-11-22
Last modified:2024-11-20
Method:ELECTRON MICROSCOPY (3.3 Å)
Cite:Transport and inhibition mechanism of the human SGLT2-MAP17 glucose transporter.
Nat.Struct.Mol.Biol., 31, 2024
9IZR
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BU of 9izr by Molmil
Cryo-EM structure of CasLambda2-crRNA-target DNA ternary complex in the NTS-cleaving state
Descriptor: 2-DEOXY-ADENOSINE -5'-THIO-MONOPHOSPHATE, 2-DEOXY-CYTIDINE-5'-THIOPHOSPHORATE, Cas Lambda2, ...
Authors:Omura, S.N, Hirano, H, Itoh, Y, Nureki, O.
Deposit date:2024-08-01
Release date:2025-06-11
Last modified:2025-06-25
Method:ELECTRON MICROSCOPY (2.93 Å)
Cite:Structural basis for target DNA cleavage and guide RNA processing by CRISPR-Cas lambda 2.
Commun Biol, 8, 2025
9IZS
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BU of 9izs by Molmil
Cryo-EM structure of CasLambda2-crRNA-target DNA ternary complex in the TS-cleaving state
Descriptor: Cas Lambda2, DNA (40-MER), MAGNESIUM ION, ...
Authors:Omura, S.N, Hirano, H, Itoh, Y, Nureki, O.
Deposit date:2024-08-01
Release date:2025-06-11
Last modified:2025-06-25
Method:ELECTRON MICROSCOPY (2.84 Å)
Cite:Structural basis for target DNA cleavage and guide RNA processing by CRISPR-Cas lambda 2.
Commun Biol, 8, 2025
9J7W
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BU of 9j7w by Molmil
Channel Rhodospin from Klebsormidium nitens (KnChR)
Descriptor: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE, KnChR, RETINAL
Authors:Wang, Y.Z, Akasaka, H, Tanaka, T, Sano, F.K, Shihoya, W, Nureki, O.
Deposit date:2024-08-20
Release date:2025-07-02
Last modified:2025-07-09
Method:ELECTRON MICROSCOPY (2.69 Å)
Cite:Cryo-EM structure of a blue-shifted channelrhodopsin from Klebsormidium nitens.
Nat Commun, 16, 2025
9IZP
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BU of 9izp by Molmil
Cryo-EM structure of CasLambda2-crRNA-target DNA ternary complex in the incompetent state
Descriptor: Cas Lambda2, DNA (40-MER), MAGNESIUM ION, ...
Authors:Omura, S.N, Hirano, H, Itoh, Y, Nureki, O.
Deposit date:2024-08-01
Release date:2025-06-11
Last modified:2025-06-25
Method:ELECTRON MICROSCOPY (2.89 Å)
Cite:Structural basis for target DNA cleavage and guide RNA processing by CRISPR-Cas lambda 2.
Commun Biol, 8, 2025
9IZM
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BU of 9izm by Molmil
Cryo-EM structure of CasLambda2-crRNA binary complex
Descriptor: Cas Lambda2, MAGNESIUM ION, RNA (58-MER)
Authors:Omura, S.N, Hirano, H, Itoh, Y, Nureki, O.
Deposit date:2024-08-01
Release date:2025-06-11
Last modified:2025-06-25
Method:ELECTRON MICROSCOPY (3.02 Å)
Cite:Structural basis for target DNA cleavage and guide RNA processing by CRISPR-Cas lambda 2.
Commun Biol, 8, 2025
9IZQ
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BU of 9izq by Molmil
Cryo-EM structure of CasLambda2-crRNA-target DNA ternary complex in the intermediate state
Descriptor: Cas Lambda2, DNA (40-MER), MAGNESIUM ION, ...
Authors:Omura, S.N, Hirano, H, Itoh, Y, Nureki, O.
Deposit date:2024-08-01
Release date:2025-06-11
Last modified:2025-06-25
Method:ELECTRON MICROSCOPY (3.06 Å)
Cite:Structural basis for target DNA cleavage and guide RNA processing by CRISPR-Cas lambda 2.
Commun Biol, 8, 2025
5JYJ
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BU of 5jyj by Molmil
Crystal structure of mouse JUNO
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Sperm-egg fusion protein Juno
Authors:Kato, K, Nishimasu, H, Morita, J, Ishitani, R, Nureki, O.
Deposit date:2016-05-14
Release date:2017-05-24
Last modified:2024-11-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structure of the egg IZUMO1 receptor JUNO
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