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
|
|
5Y0O
| Crystal structure of apo BsTmcAL | Descriptor: | 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 (2.3 Å) | Cite: | Acetate-dependent tRNA acetylation required for decoding fidelity in protein synthesis. Nat. Chem. Biol., 14, 2018
|
|
5WU3
| Crystal structure of human Tut1 bound with MgUTP, form II | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, MAGNESIUM ION, ... | Authors: | Yamashita, S, Tomita, K. | Deposit date: | 2016-12-16 | Release date: | 2017-05-31 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.703 Å) | Cite: | Crystal structures of U6 snRNA-specific terminal uridylyltransferase Nat Commun, 8, 2017
|
|
5Y0T
| |
5WU4
| |
5WU1
| Crystal structure of apo human Tut1, form I | Descriptor: | CHLORIDE ION, Speckle targeted PIP5K1A-regulated poly(A) polymerase | Authors: | Yamashita, S, Tomita, K. | Deposit date: | 2016-12-16 | Release date: | 2017-05-31 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal structures of U6 snRNA-specific terminal uridylyltransferase Nat Commun, 8, 2017
|
|
5WU5
| Crystal structure of apo human Tut1, form III | Descriptor: | Speckle targeted PIP5K1A-regulated poly(A) polymerase | Authors: | Yamashita, S, Tomita, K. | Deposit date: | 2016-12-16 | Release date: | 2017-05-31 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.404 Å) | Cite: | Crystal structures of U6 snRNA-specific terminal uridylyltransferase Nat Commun, 8, 2017
|
|
5WU2
| |
5Y0P
| |
5Y0S
| |
6IW6
| Crystal structure of the Lin28-interacting module of human TUT4 | Descriptor: | 1,2-ETHANEDIOL, CITRATE ANION, Terminal uridylyltransferase 4,Terminal uridylyltransferase 4, ... | Authors: | Yamashita, S, Tomita, K. | Deposit date: | 2018-12-04 | Release date: | 2019-04-24 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.402 Å) | Cite: | Crystal structure of the Lin28-interacting module of human terminal uridylyltransferase that regulates let-7 expression. Nat Commun, 10, 2019
|
|
3WFS
| tRNA processing enzyme complex 3 | Descriptor: | Poly A polymerase, RNA (74-MER), SULFATE ION | Authors: | Yamashita, S, Takeshita, D, Tomita, K. | Deposit date: | 2013-07-23 | Release date: | 2014-01-01 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.311 Å) | Cite: | Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
|
|
3WFP
| tRNA processing enzyme (apo form 2) | Descriptor: | Poly A polymerase, SULFATE ION | Authors: | Yamashita, S, Takeshita, D, Tomita, K. | Deposit date: | 2013-07-23 | Release date: | 2014-01-01 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (4.005 Å) | Cite: | Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
|
|
3WFO
| tRNA processing enzyme (apo form 1) | Descriptor: | Poly A polymerase, SULFATE ION | Authors: | Yamashita, S, Takeshita, D, Tomita, K. | Deposit date: | 2013-07-23 | Release date: | 2014-01-01 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
|
|
3WFR
| tRNA processing enzyme complex 2 | Descriptor: | CYTIDINE-5'-TRIPHOSPHATE, MAGNESIUM ION, PYROPHOSPHATE 2-, ... | Authors: | Yamashita, S, Takeshita, D, Tomita, K. | Deposit date: | 2013-07-23 | Release date: | 2014-01-01 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.501 Å) | Cite: | Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
|
|
3WFQ
| tRNA processing enzyme complex 1 | Descriptor: | Poly A polymerase, RNA (73-MER) | Authors: | Yamashita, S, Takeshita, D, Tomita, K. | Deposit date: | 2013-07-23 | Release date: | 2014-01-01 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.619 Å) | Cite: | Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
|
|
7VNW
| |
7VNV
| |
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
|
|
8JRD
| Chalcone synthase from Glycine max (L.) Merr (soybean) complexed with naringenin and coenzyme A | Descriptor: | 1,2-ETHANEDIOL, COENZYME A, DI(HYDROXYETHYL)ETHER, ... | Authors: | Waki, T, Imaizumi, R, Nakata, S, Yanai, T, Takeshita, K, Sakai, N, Kataoka, K, Yamamoto, M, Nakayama, T, Yamashita, S. | Deposit date: | 2023-06-16 | Release date: | 2024-06-19 | Last modified: | 2024-07-17 | Method: | X-RAY DIFFRACTION (1.83 Å) | Cite: | Structural insights into catalytic promiscuity of chalcone synthase from Glycine max (L.) Merr.: Coenzyme A-induced alteration of product specificity. Biochem.Biophys.Res.Commun., 718, 2024
|
|
8X36
| Neryl diphosphate synthase from Solanum lycopersicum complexed with DMSAPP, IPP, and magnesium ion (form B) | Descriptor: | 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE, DIMETHYLALLYL S-THIOLODIPHOSPHATE, MAGNESIUM ION, ... | Authors: | Imaizumi, R, Matsuura, H, Yanai, T, Takeshita, K, Misawa, S, Yamaguchi, H, Sakai, N, Miyagi-Inoue, Y, Suenaga-Hiromori, M, Kataoka, K, Nakayama, T, Yamamoto, M, Takahashi, S, Yamashita, S. | Deposit date: | 2023-11-12 | Release date: | 2024-02-07 | Last modified: | 2024-04-24 | Method: | X-RAY DIFFRACTION (2.28 Å) | Cite: | Structural-Functional Correlations between Unique N-terminal Region and C-terminal Conserved Motif in Short-chain cis-Prenyltransferase from Tomato. Chembiochem, 25, 2024
|
|
8X35
| Neryl diphosphate synthase from Solanum lycopersicum complexed with DMSAPP, IPP, and magnesium ion (form A) | Descriptor: | 1,2-ETHANEDIOL, 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE, DI(HYDROXYETHYL)ETHER, ... | Authors: | Imaizumi, R, Matsuura, H, Yanai, T, Takeshita, K, Misawa, S, Yamaguchi, H, Sakai, N, Miyagi-Inoue, Y, Suenaga-Hiromori, M, Kataoka, K, Nakayama, T, Yamamoto, M, Takahashi, S, Yamashita, S. | Deposit date: | 2023-11-12 | Release date: | 2024-02-07 | Last modified: | 2024-04-24 | Method: | X-RAY DIFFRACTION (1.92 Å) | Cite: | Structural-Functional Correlations between Unique N-terminal Region and C-terminal Conserved Motif in Short-chain cis-Prenyltransferase from Tomato. Chembiochem, 25, 2024
|
|
8X37
| Neryl diphosphate synthase from Solanum lycopersicum complexed with DMSAPP | Descriptor: | DIMETHYLALLYL S-THIOLODIPHOSPHATE, MAGNESIUM ION, Neryl-diphosphate synthase 1 | Authors: | Imaizumi, R, Matsuura, H, Yanai, T, Takeshita, K, Misawa, S, Yamaguchi, H, Sakai, N, Miyagi-Inoue, Y, Suenaga-Hiromori, M, Kataoka, K, Nakayama, T, Yamamoto, M, Takahashi, S, Yamashita, S. | Deposit date: | 2023-11-12 | Release date: | 2024-02-07 | Last modified: | 2024-04-24 | Method: | X-RAY DIFFRACTION (1.98 Å) | Cite: | Structural-Functional Correlations between Unique N-terminal Region and C-terminal Conserved Motif in Short-chain cis-Prenyltransferase from Tomato. Chembiochem, 25, 2024
|
|
8KGA
| SlNDPS1-AtcPT4 Chimera | Descriptor: | 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, Dimethylallylcistransferase CPT1, ... | Authors: | Suenaga-Hiromori, M, Ishii, T, Imaizumi, R, Takeshita, K, Yanai, T, Matsuura, H, Sakai, N, Yamaguchi, H, Yanbe, F, Waki, T, Tozawa, Y, Miyagi-Inoue, Y, Yamamoto, M, Kataoka, K, Nakayama, T, Yamashita, S, Takahashi, S. | Deposit date: | 2023-08-18 | Release date: | 2024-08-21 | Method: | X-RAY DIFFRACTION (2.182 Å) | Cite: | Biosynthesising various rubber-like polymers by reconstituting prenyltransferases on Hevea rubber particles: molecular and structural bases of the versatile system To Be Published
|
|
8KGB
| SlNDPS1-AtcPT4 Chimera complexed with GSPP, Mg2+, and IPP | Descriptor: | 3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE, Dimethylallylcistransferase CPT1, chloroplastic,Dehydrodolichyl diphosphate synthase 2, ... | Authors: | Suenaga-Hiromori, M, Ishii, T, Imaizumi, R, Takeshita, K, Yanai, T, Matsuura, H, Sakai, N, Yamaguchi, H, Yanbe, F, Waki, T, Tozawa, Y, Miyagi-Inoue, Y, Yamamoto, M, Kataoka, K, Nakayama, T, Yamashita, S, Takahashi, S. | Deposit date: | 2023-08-18 | Release date: | 2024-08-21 | Method: | X-RAY DIFFRACTION (2.32 Å) | Cite: | A versatile system for enzymatic synthesis of natural and unnatural polyisoprenoids on rubber particles To Be Published
|
|