8XHR
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293D
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![BU of 293d by Molmil](/molmil-images/mine/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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5HC9
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4FWT
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![BU of 4fwt by Molmil](/molmil-images/mine/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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292D
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![BU of 292d by Molmil](/molmil-images/mine/292d) | INTERACTION BETWEEN THE LEFT-HANDED Z-DNA AND POLYAMINE:THE CRYSTAL STRUCTURE OF THE D(CG)3 AND N-(2-AMINOETHYL)-1,4-DIAMINOBUTANE COMPLEX | Descriptor: | 1-(AMINOETHYL)AMINO-4-AMINOBUTANE, DNA (5'-D(*CP*GP*CP*GP*CP*G)-3'), MAGNESIUM ION, ... | Authors: | Ohishi, H, Kunisawa, S, Van Der Marel, G, Van Boom, J.H, Rich, A, Wang, A.H.-J, Tomita, K, Hakoshima, T. | Deposit date: | 1991-10-09 | 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. The crystal structure of the d(CG)3 and N-(2-aminoethyl)-1,4-diamino-butane complex. FEBS Lett., 284, 1991
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2DPT
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2DPS
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6L8U
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![BU of 6l8u by Molmil](/molmil-images/mine/6l8u) | Crystal structure of human BCDIN3D in complex with SAH | Descriptor: | RNA 5'-monophosphate methyltransferase, S-ADENOSYL-L-HOMOCYSTEINE | Authors: | Liu, Y, Martinez, A, Yamashita, S, Tomita, K. | Deposit date: | 2019-11-07 | Release date: | 2019-12-25 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.925 Å) | Cite: | Crystal structure of human cytoplasmic tRNAHis-specific 5'-monomethylphosphate capping enzyme. Nucleic Acids Res., 48, 2020
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6LMI
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![BU of 6lmi by Molmil](/molmil-images/mine/6lmi) | Crystal structure of HIV-1 integrase catalytic core domain in complex with 2-(tert-butoxy)-2-[3-(3,4-dihydro-2H-1-benzopyran-6-yl)-6-methanesulfonamido-2,3',4',5-tetramethyl-[1,1'-biphenyl]-4-yl]acetic acid | Descriptor: | (2S)-2-[2-(3,4-dihydro-2H-chromen-6-yl)-4-(3,4-dimethylphenyl)-3,6-dimethyl-5-(methylsulfonylamino)phenyl]-2-[(2-methylpropan-2-yl)oxy]ethanoic acid, 1,2-ETHANEDIOL, Integrase catalytic, ... | Authors: | Sugiyama, S, Iwaki, T, Tamura, Y, Tomita, K, Matsuoka, E, Arita, S, Seki, T, Yoshinaga, T, Kawasuji, T. | Deposit date: | 2019-12-25 | Release date: | 2020-09-23 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Discovery of novel integrase-LEDGF/p75 allosteric inhibitors based on a benzene scaffold. Bioorg.Med.Chem., 28, 2020
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6LMQ
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![BU of 6lmq by Molmil](/molmil-images/mine/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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7VNX
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![BU of 7vnx by Molmil](/molmil-images/mine/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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3H39
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![BU of 3h39 by Molmil](/molmil-images/mine/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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3H3A
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![BU of 3h3a by Molmil](/molmil-images/mine/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
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![BU of 3h38 by Molmil](/molmil-images/mine/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
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![BU of 3h37 by Molmil](/molmil-images/mine/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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7CHD
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![BU of 7chd by Molmil](/molmil-images/mine/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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7F36
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![BU of 7f36 by Molmil](/molmil-images/mine/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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7F37
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![BU of 7f37 by Molmil](/molmil-images/mine/7f37) | Crystal structure of AtaT2-AtaR2 complex | Descriptor: | DUF1778 domain-containing protein, GNAT family N-acetyltransferase | Authors: | Yashiro, Y, Tomita, K. | Deposit date: | 2021-06-15 | Release date: | 2021-12-22 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.896 Å) | Cite: | Molecular basis of glycyl-tRNAGly acetylation by TacT from Salmonella Typhimurium Cell Rep, 37, 2021
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7VMC
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![BU of 7vmc by Molmil](/molmil-images/mine/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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5Y0P
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5Y0S
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5Y0R
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5Y0N
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5Y0Q
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![BU of 5y0q by Molmil](/molmil-images/mine/5y0q) | Crystal structure of BsTmcAL bound with AMPCPP | Descriptor: | DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, UPF0348 protein B4417_3650 | Authors: | Yamashita, S, Tomita, K. | Deposit date: | 2017-07-18 | Release date: | 2018-07-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Acetate-dependent tRNA acetylation required for decoding fidelity in protein synthesis. Nat. Chem. Biol., 14, 2018
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