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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
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
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
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:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Enzyme structure with two catalytic sites for double-sieve selection of substrate.
Science, 280, 1998
8XBH
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BU of 8xbh by Molmil
Human GPR34 -Gi complex bound to M1
Descriptor: (2~{S})-2-azanyl-3-[[(2~{R})-1-ethoxy-3-[3-[2-[(3-phenoxyphenyl)methoxy]phenyl]propanoyloxy]propan-2-yl]oxy-oxidanyl-phosphoryl]oxy-propanoic acid, Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2, Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, ...
Authors:Kawahara, R, Shihoya, W, Nureki, O.
Deposit date:2023-12-06
Release date:2023-12-27
Method:ELECTRON MICROSCOPY (2.83 Å)
Cite:Cryo-EM structure of the Human GPR34-Gi complex bound to S3E-LysoPS
To Be Published
8XBI
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BU of 8xbi by Molmil
Human GPR34 -Gi complex bound to M1, receptor focused
Descriptor: (2~{S})-2-azanyl-3-[[(2~{R})-1-ethoxy-3-[3-[2-[(3-phenoxyphenyl)methoxy]phenyl]propanoyloxy]propan-2-yl]oxy-oxidanyl-phosphoryl]oxy-propanoic acid, Probable G-protein coupled receptor 34
Authors:Kawahara, R, Shihoya, W, Nureki, O.
Deposit date:2023-12-06
Release date:2023-12-27
Method:ELECTRON MICROSCOPY (3.06 Å)
Cite:Cryo-EM structure of the Human GPR34-Gi complex bound to S3E-LysoPS
To Be Published
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:2024-03-13
Method:X-RAY DIFFRACTION (2.94 Å)
Cite:Mg(2+)-dependent gating of bacterial MgtE channel underlies Mg(2+) homeostasis
Embo J., 28, 2009
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: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
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
1B7F
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BU of 1b7f by Molmil
SXL-LETHAL PROTEIN/RNA COMPLEX
Descriptor: PROTEIN (SXL-LETHAL PROTEIN), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3')
Authors:Handa, N, Nureki, O, Kurimoto, K, Kim, I, Sakamoto, H, Shimura, Y, Muto, Y, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1999-01-23
Release date:1999-05-03
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural basis for recognition of the tra mRNA precursor by the Sex-lethal protein.
Nature, 398, 1999
1A8H
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BU of 1a8h by Molmil
METHIONYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS
Descriptor: METHIONYL-TRNA SYNTHETASE, ZINC ION
Authors:Sugiura, I, Nureki, O, Ugaji, Y, Kuwabara, S, Lober, B, Giege, R, Moras, D, Yokoyama, S, Konno, M, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1998-03-26
Release date:1999-05-04
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2 Å)
Cite:The 2.0 A crystal structure of Thermus thermophilus methionyl-tRNA synthetase reveals two RNA-binding modules.
Structure, 8, 2000
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
8H1J
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BU of 8h1j by Molmil
Cryo-EM structure of the TnpB-omegaRNA-target DNA ternary complex
Descriptor: Non-target strand, RNA-guided DNA endonuclease TnpB, Target strand, ...
Authors:Nakagawa, R, Hirano, H, Omura, S, Nureki, O.
Deposit date:2022-10-03
Release date:2023-04-12
Last modified:2023-04-26
Method:ELECTRON MICROSCOPY (3.1 Å)
Cite:Cryo-EM structure of the transposon-associated TnpB enzyme.
Nature, 616, 2023
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
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
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
2RRN
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BU of 2rrn by Molmil
Solution structure of SecDF periplasmic domain P4
Descriptor: Probable SecDF protein-export membrane protein
Authors:Tanaka, T, Tsukazaki, T, Echizen, Y, Nureki, O, Kohno, T.
Deposit date:2011-01-30
Release date:2011-05-18
Last modified:2011-12-28
Method:SOLUTION NMR
Cite:Structure and function of a membrane component SecDF that enhances protein export
Nature, 474, 2011
1GAX
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BU of 1gax by Molmil
CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE
Descriptor: N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, TRNA(VAL), VALYL-TRNA SYNTHETASE, ...
Authors:Fukai, S, Nureki, O, Sekine, S, Shimada, A, Tao, J, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2000-06-23
Release date:2000-12-06
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structural basis for double-sieve discrimination of L-valine from L-isoleucine and L-threonine by the complex of tRNA(Val) and valyl-tRNA synthetase.
Cell(Cambridge,Mass.), 103, 2000
1G59
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BU of 1g59 by Molmil
GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(GLU).
Descriptor: GLUTAMYL-TRNA SYNTHETASE, TRNA(GLU)
Authors:Sekine, S, Nureki, O, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2000-10-31
Release date:2001-09-01
Last modified:2023-08-02
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for anticodon recognition by discriminating glutamyl-tRNA synthetase.
Nat.Struct.Biol., 8, 2001
5NDC
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BU of 5ndc by Molmil
Structure of ba3-type cytochrome c oxidase from Thermus thermophilus by serial femtosecond crystallography
Descriptor: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, COPPER (II) ION, Cytochrome c oxidase polypeptide IIA, ...
Authors:Andersson, R, Safari, C, Dods, R, Nango, E, Tanaka, R, Nakane, T, Tono, K, Joti, Y, Bath, P, Dunevall, E, Bosman, E, Nureki, O, Iwata, S, Neutze, R, Branden, G.
Deposit date:2017-03-08
Release date:2017-08-23
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Serial femtosecond crystallography structure of cytochrome c oxidase at room temperature.
Sci Rep, 7, 2017
1QQT
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BU of 1qqt by Molmil
METHIONYL-TRNA SYNTHETASE FROM ESCHERICHIA COLI
Descriptor: METHIONYL-TRNA SYNTHETASE, ZINC ION
Authors:Mechulam, Y, Schmitt, E, Maveyraud, L, Zelwer, C, Nureki, O, Yokoyama, S, Konno, M, Blanquet, S.
Deposit date:1999-06-08
Release date:2000-01-01
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.03 Å)
Cite:Crystal structure of Escherichia coli methionyl-tRNA synthetase highlights species-specific features.
J.Mol.Biol., 294, 1999

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