6LMQ
 
 | | Crystal structure of HIV-1 integrase catalytic core domain in complex with 2-(tert-butoxy)-2-[3-(3,4-dihydro-2H-1,4-benzoxazin-6-yl)-6-methanesulfonamido-2,3',4',5-tetramethyl-[1,1'-biphenyl]-4-yl]acetic acid | | Descriptor: | (2S)-2-[2-(3,4-dihydro-2H-1,4-benzoxazin-6-yl)-4-(3,4-dimethylphenyl)-3,6-dimethyl-5-(methylsulfonylamino)phenyl]-2-[(2-methylpropan-2-yl)oxy]ethanoic acid, Integrase catalytic, SULFATE ION, ... | | Authors: | Sugiyama, S, Iwaki, T, Tamura, Y, Tomita, K, Matsuoka, E, Arita, S, Seki, T, Yoshinaga, T, Kawasuji, T. | | Deposit date: | 2019-12-26 | | Release date: | 2020-09-23 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Discovery of novel integrase-LEDGF/p75 allosteric inhibitors based on a benzene scaffold.
Bioorg.Med.Chem., 28, 2020
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6M1U
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8IDF
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4X0A
 | | Structure of tRNA-processing enzyme complex 6 | | Descriptor: | Poly A polymerase, RNA (73-MER) | | Authors: | Yamashita, S, Tomita, K. | | Deposit date: | 2014-11-21 | | Release date: | 2015-04-15 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.505 Å) | | Cite: | Measurement of Acceptor-T Psi C Helix Length of tRNA for Terminal A76-Addition by A-Adding Enzyme.
Structure, 23, 2015
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4X0B
 | | Structure of tRNA-processing enzyme complex 7 | | Descriptor: | Poly A polymerase, RNA (77-MER) | | Authors: | Yamashita, S, Tomita, K. | | Deposit date: | 2014-11-21 | | Release date: | 2015-04-15 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Measurement of Acceptor-T Psi C Helix Length of tRNA for Terminal A76-Addition by A-Adding Enzyme.
Structure, 23, 2015
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3H3A
 | | The complex structure of CCA-adding enzyme with CTP | | Descriptor: | CYTIDINE-5'-TRIPHOSPHATE, TRNA nucleotidyl transferase-related protein | | Authors: | Toh, Y, Tomita, K. | | Deposit date: | 2009-04-16 | | Release date: | 2009-10-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.801 Å) | | Cite: | Mechanism for the definition of elongation and termination by the class II CCA-adding enzyme
Embo J., 28, 2009
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3H38
 | | The structure of CCA-adding enzyme apo form II | | Descriptor: | TRNA nucleotidyl transferase-related protein | | Authors: | Toh, Y, Tomita, K. | | Deposit date: | 2009-04-16 | | Release date: | 2009-10-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.37 Å) | | Cite: | Mechanism for the definition of elongation and termination by the class II CCA-adding enzyme
Embo J., 28, 2009
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3H37
 | | The structure of CCA-adding enzyme apo form I | | Descriptor: | TRNA nucleotidyl transferase-related protein | | Authors: | Toh, Y, Tomita, K. | | Deposit date: | 2009-04-16 | | Release date: | 2009-10-13 | | Last modified: | 2014-02-05 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Mechanism for the definition of elongation and termination by the class II CCA-adding enzyme
Embo J., 28, 2009
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3H39
 | | The complex structure of CCA-adding enzyme with ATP | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, TRNA nucleotidyl transferase-related protein | | Authors: | Toh, Y, Tomita, K. | | Deposit date: | 2009-04-16 | | Release date: | 2009-10-13 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.854 Å) | | Cite: | Mechanism for the definition of elongation and termination by the class II CCA-adding enzyme
Embo J., 28, 2009
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4FWT
 | | Complex structure of viral RNA polymerase form III | | Descriptor: | CALCIUM ION, Elongation factor Ts, Elongation factor Tu, ... | | Authors: | Takeshita, D, Tomita, K. | | Deposit date: | 2012-07-02 | | Release date: | 2012-08-08 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Mechanism for template-independent terminal adenylation activity of Q beta replicase
Structure, 20, 2012
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8J6V
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5HC9
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2DPT
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2DPS
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293D
 | | INTERACTION BETWEEN THE LEFT-HANDED Z-DNA AND POLYAMINE-2: THE CRYSTAL STRUCTURE OF THE D(CG)3 AND SPERMIDINE COMPLEX | | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*CP*G)-3'), MAGNESIUM ION, SODIUM ION, ... | | Authors: | Ohishi, H, Nakanishi, I, Inubushi, K, Van Der Marel, G.A, Van Boom, J.H, Rich, A, Wang, A.H.-J, Hakoshima, T, Tomita, K. | | Deposit date: | 1996-10-09 | | Release date: | 1996-12-02 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1 Å) | | Cite: | Interaction between the left-handed Z-DNA and polyamine-2. The crystal structure of the d(CG)3 and spermidine complex.
FEBS Lett., 391, 1996
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7VNX
 | | Crystal structure of TkArkI | | Descriptor: | GUANOSINE, TkArkI | | Authors: | Yamashita, S, Minowa, K, Ohira, T, Suzuki, T, Tomita, K. | | Deposit date: | 2021-10-12 | | Release date: | 2022-05-04 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.801 Å) | | Cite: | Reversible RNA phosphorylation stabilizes tRNA for cellular thermotolerance.
Nature, 605, 2022
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2Z3P
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2Z3O
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2Z3K
 | | complex structure of LF-transferase and rAF | | Descriptor: | 2-(6-AMINO-OCTAHYDRO-PURIN-9-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL, D(-)-TARTARIC ACID, Leucyl/phenylalanyl-tRNA-protein transferase, ... | | Authors: | Watanabe, K, Toh, Y, Tomita, K. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.85 Å) | | Cite: | Protein-based peptide-bond formation by aminoacyl-tRNA protein transferase
Nature, 449, 2007
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2Z3M
 | | complex structure of LF-transferase and dAF | | Descriptor: | (2R,3S,5R)-5-(6-amino-9H-purin-9-yl)-tetrahydro-2-(hydroxymethyl)furan-3-ol, D(-)-TARTARIC ACID, Leucyl/phenylalanyl-tRNA-protein transferase, ... | | Authors: | Watanabe, K, Toh, Y, Tomita, K. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Protein-based peptide-bond formation by aminoacyl-tRNA protein transferase
Nature, 449, 2007
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2Z3L
 | | complex structure of LF-transferase and peptide A | | Descriptor: | D(-)-TARTARIC ACID, Leucyl/phenylalanyl-tRNA-protein transferase, peptide (PHE)(ARG)(TYR)(LEU)(GLY) | | Authors: | Watanabe, K, Toh, Y, Tomita, K. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.75 Å) | | Cite: | Protein-based peptide-bond formation by aminoacyl-tRNA protein transferase
Nature, 449, 2007
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2Z3N
 | | complex structure of LF-transferase and peptide B | | Descriptor: | D(-)-TARTARIC ACID, Leucyl/phenylalanyl-tRNA-protein transferase, peptide (PHE)(ARG)(TYR)(LEU)(GLY) | | Authors: | Watanabe, K, Toh, Y, Tomita, K. | | Deposit date: | 2007-06-04 | | Release date: | 2007-10-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Protein-based peptide-bond formation by aminoacyl-tRNA protein transferase
Nature, 449, 2007
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7CHD
 | | AtaT complexed with acetyl-methionyl-tRNAfMet | | Descriptor: | N-acetyltransferase domain-containing protein, RNA (77-MER) | | Authors: | Yashiro, Y, Tomita, K. | | Deposit date: | 2020-07-05 | | Release date: | 2020-11-04 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.804 Å) | | Cite: | Mechanism of aminoacyl-tRNA acetylation by an aminoacyl-tRNA acetyltransferase AtaT from enterohemorrhagic E. coli.
Nat Commun, 11, 2020
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7VMC
 | | Crystal structure of EF-Tu/CdiA/CdiI | | Descriptor: | Contact-dependent inhibitor I, Elongation factor Tu, tRNA nuclease CdiA | | Authors: | Wang, J, Yashiro, Y, Tomita, K. | | Deposit date: | 2021-10-08 | | Release date: | 2022-03-30 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.413 Å) | | Cite: | Mechanistic insights into tRNA cleavage by a contact-dependent growth inhibitor protein and translation factors.
Nucleic Acids Res., 50, 2022
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7F36
 | | TacT complexed with acetyl-glycyl-tRNAGly | | Descriptor: | ACETYLAMINO-ACETIC ACID, CALCIUM ION, N-acetyltransferase domain-containing protein, ... | | Authors: | Yashiro, Y, Tomita, K. | | Deposit date: | 2021-06-15 | | Release date: | 2021-12-22 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.098 Å) | | Cite: | Molecular basis of glycyl-tRNAGly acetylation by TacT from Salmonella Typhimurium
Cell Rep, 37, 2021
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