8UPT
| Candidatus Methanomethylophilus alvus tRNAPyl in A-site of ribosome | Descriptor: | RNA (71-MER) | Authors: | Krahn, N, Zhang, J, Melnikov, S.V, Tharp, J.M, Villa, A, Patel, A, Howard, R.J, Gabir, H, Patel, T.R, Stetefeld, J, Puglisi, J, Soll, D. | Deposit date: | 2023-10-23 | Release date: | 2024-01-10 | Last modified: | 2024-02-07 | Method: | ELECTRON MICROSCOPY (2.8 Å) | Cite: | tRNA shape is an identity element for an archaeal pyrrolysyl-tRNA synthetase from the human gut. Nucleic Acids Res., 52, 2024
|
|
1NJ2
| Crystal structure of Prolyl-tRNA Synthetase from Methanothermobacter thermautotrophicus | Descriptor: | MAGNESIUM ION, Proline-tRNA Synthetase, ZINC ION | Authors: | Kamtekar, S, Kennedy, W.D, Wang, J, Stathopoulos, C, Soll, D, Steitz, T.A. | Deposit date: | 2002-12-30 | Release date: | 2003-03-04 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (3.11 Å) | Cite: | The structural basis of cysteine aminoacylation of tRNAPro by prolyl-tRNA synthetases Proc.Natl.Acad.Sci.USA, 100, 2003
|
|
6N9F
| Crystal structure of the Thermus thermophilus 70S ribosome in complex with a short substrate mimic ACCA-DPhe and bound to mRNA and P-site tRNA at 3.7A resolution | Descriptor: | 16S Ribosomal RNA, 23S Ribosomal RNA, 30S Ribosomal Protein S19, ... | Authors: | Melnikov, S.V, Khabibullina, N.F, Mairhofer, E, Vargas-Rodriguez, O, Reynolds, N.M, Micura, R, Soll, D, Polikanov, Y.S. | Deposit date: | 2018-12-03 | Release date: | 2018-12-12 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (3.7 Å) | Cite: | Mechanistic insights into the slow peptide bond formation with D-amino acids in the ribosomal active site. Nucleic Acids Res., 47, 2019
|
|
6N9E
| Crystal structure of the Thermus thermophilus 70S ribosome in complex with a short substrate mimic CC-Pmn and bound to mRNA and P-site tRNA at 3.7A resolution | Descriptor: | 16S Ribosomal RNA, 23S Ribosomal RNA, 30S Ribosomal Protein S19, ... | Authors: | Melnikov, S.V, Khabibullina, N.F, Mairhofer, E, Vargas-Rodriguez, O, Reynolds, N.M, Micura, R, Soll, D, Polikanov, Y.S. | Deposit date: | 2018-12-03 | Release date: | 2018-12-12 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (3.7 Å) | Cite: | Mechanistic insights into the slow peptide bond formation with D-amino acids in the ribosomal active site. Nucleic Acids Res., 47, 2019
|
|
5UD5
| |
5V6X
| |
4TQD
| Crystal Structure of the C-terminal domain of IFRS bound with 3-iodo-L-Phe and ATP | Descriptor: | 1,2-ETHANEDIOL, 3-iodo-L-phenylalanine, ADENOSINE-5'-TRIPHOSPHATE, ... | Authors: | Nakamura, A, O'Donoghue, P, Soll, D. | Deposit date: | 2014-06-11 | Release date: | 2014-11-12 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.1429 Å) | Cite: | Polyspecific pyrrolysyl-tRNA synthetases from directed evolution. Proc.Natl.Acad.Sci.USA, 111, 2014
|
|
4TQF
| Crystal Structure of the C-terminal domain of IFRS bound with 2-(5-bromothienyl)-L-Ala and ATP | Descriptor: | 1,2-ETHANEDIOL, 3-(5-bromothiophen-2-yl)-L-alanine, ADENOSINE-5'-TRIPHOSPHATE, ... | Authors: | Nakamura, A, O'Donoghue, P, Soll, D. | Deposit date: | 2014-06-11 | Release date: | 2014-11-12 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (2.7143 Å) | Cite: | Polyspecific pyrrolysyl-tRNA synthetases from directed evolution. Proc.Natl.Acad.Sci.USA, 111, 2014
|
|
4ZIB
| Crystal Structure of the C-terminal domain of PylRS mutant bound with 3-benzothienyl-l-alanine and ATP | Descriptor: | 1,2-ETHANEDIOL, 3-(1-benzothiophen-3-yl)-L-alanine, ADENOSINE-5'-TRIPHOSPHATE, ... | Authors: | Nakamura, A, Guo, L.T, Wang, Y.S, Soll, D. | Deposit date: | 2015-04-28 | Release date: | 2016-03-02 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.054 Å) | Cite: | Probing the active site tryptophan of Staphylococcus aureus thioredoxin with an analog. Nucleic Acids Res., 43, 2015
|
|
4Y4O
| Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 16S Ribosomal RNA, 23S Ribosomal RNA, ... | Authors: | Polikanov, Y.S, Melnikov, S.V, Soll, D, Steitz, T.A. | Deposit date: | 2015-02-10 | Release date: | 2015-03-18 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly. Nat.Struct.Mol.Biol., 22, 2015
|
|
4Y4P
| Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution | Descriptor: | 16S Ribosomal RNA, 23S Ribosomal RNA, 30S ribosomal protein S10, ... | Authors: | Polikanov, Y.S, Melnikov, S.V, Soll, D, Steitz, T.A. | Deposit date: | 2015-02-10 | Release date: | 2015-03-18 | Last modified: | 2019-12-25 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly. Nat.Struct.Mol.Biol., 22, 2015
|
|
4DWR
| RNA ligase RtcB/Mn2+ complex | Descriptor: | MANGANESE (II) ION, SULFATE ION, beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose, ... | Authors: | Xia, S, Englert, M, Soll, D, Wang, J. | Deposit date: | 2012-02-26 | Release date: | 2012-09-05 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.48 Å) | Cite: | Structural and mechanistic insights into guanylylation of RNA-splicing ligase RtcB joining RNA between 3'-terminal phosphate and 5'-OH. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
3HL2
| The crystal structure of the human SepSecS-tRNASec complex | Descriptor: | (5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE, Monothiophosphate, O-phosphoseryl-tRNA(Sec) selenium transferase, ... | Authors: | Palioura, S, Steitz, T.A, Soll, D, Simonovic, M. | Deposit date: | 2009-05-26 | Release date: | 2009-10-06 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.81 Å) | Cite: | The human SepSecS-tRNASec complex reveals the mechanism of selenocysteine formation. Science, 325, 2009
|
|
1IRX
| 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
|
|
4EO4
| Crystal structure of the yeast mitochondrial threonyl-tRNA synthetase (MST1) in complex with seryl sulfamoyl adenylate | Descriptor: | 5'-O-(N-(L-SERYL)-SULFAMOYL)ADENOSINE, Threonine--tRNA ligase, mitochondrial, ... | Authors: | Peterson, K.M, Ling, J, Simonovic, I, Soll, D, Simonovic, M. | Deposit date: | 2012-04-13 | Release date: | 2012-07-11 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.87 Å) | Cite: | The mechanism of pre-transfer editing in yeast mitochondrial threonyl-tRNA synthetase. J.Biol.Chem., 287, 2012
|
|
3UGT
| Crystal structure of the yeast mitochondrial threonyl-tRNA synthetase - orthorhombic crystal form | Descriptor: | Threonyl-tRNA synthetase, mitochondrial, ZINC ION | Authors: | Peterson, K.M, Ling, J, Simonovic, I, Cho, C, Soll, D, Simonovic, M. | Deposit date: | 2011-11-02 | Release date: | 2012-02-22 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (3.6 Å) | Cite: | Yeast mitochondrial threonyl-tRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
4DWQ
| RNA ligase RtcB-GMP/Mn(2+) complex | Descriptor: | GLYCEROL, GUANOSINE-5'-MONOPHOSPHATE, MALONATE ION, ... | Authors: | Okada, C, Xia, S, Englert, M, Yao, M, Soll, D, Wang, J. | Deposit date: | 2012-02-26 | Release date: | 2012-09-05 | Last modified: | 2017-08-02 | Method: | X-RAY DIFFRACTION (2.25 Å) | Cite: | Structural and mechanistic insights into guanylylation of RNA-splicing ligase RtcB joining RNA between 3'-terminal phosphate and 5'-OH. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
3UH0
| Crystal structure of the yeast mitochondrial threonyl-tRNA synthetase (MST1) in complex with threonyl sulfamoyl adenylate | Descriptor: | 5'-O-(N-(L-THREONYL)-SULFAMOYL)ADENOSINE, SULFATE ION, Threonyl-tRNA synthetase, ... | Authors: | Peterson, K.M, Ling, J, Simonovic, I, Cho, C, Soll, D, Simonovic, M. | Deposit date: | 2011-11-03 | Release date: | 2012-02-22 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Yeast mitochondrial threonyl-tRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
3UGQ
| Crystal structure of the apo form of the yeast mitochondrial threonyl-tRNA synthetase determined at 2.1 Angstrom resolution | Descriptor: | POTASSIUM ION, SULFATE ION, Threonyl-tRNA synthetase, ... | Authors: | Peterson, K.M, Ling, J, Simonovic, I, Cho, C, Soll, D, Simonovic, M. | Deposit date: | 2011-11-02 | Release date: | 2012-02-22 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Yeast mitochondrial threonyl-tRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment. Proc.Natl.Acad.Sci.USA, 109, 2012
|
|
3H0R
| Structure of trna-dependent amidotransferase gatcab from aquifex aeolicus | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ADENOSINE-5'-TRIPHOSPHATE, ASPARAGINE, ... | Authors: | Wu, J, Bu, W, Sheppard, K, Kitabatake, M, Soll, D, Smith, J.L. | Deposit date: | 2009-04-10 | Release date: | 2009-07-21 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Insights into tRNA-Dependent Amidotransferase Evolution and Catalysis from the Structure of the Aquifex aeolicus Enzyme J.Mol.Biol., 391, 2009
|
|
3H0M
| Structure of trna-dependent amidotransferase gatcab from aquifex aeolicus | Descriptor: | Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, GLUTAMINE, Glutamyl-tRNA(Gln) amidotransferase subunit A, ... | Authors: | Wu, J, Bu, W, Sheppard, K, Kitabatake, M, Soll, D, Smith, J.L. | Deposit date: | 2009-04-09 | Release date: | 2009-07-21 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Insights into tRNA-Dependent Amidotransferase Evolution and Catalysis from the Structure of the Aquifex aeolicus Enzyme J.Mol.Biol., 391, 2009
|
|
3H0L
| Structure of trna-dependent amidotransferase gatcab from aquifex aeolicus | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ASPARAGINE, Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B, ... | Authors: | Wu, J, Bu, W, Sheppard, K, Kitabatake, M, Soll, D, Smith, J.L. | Deposit date: | 2009-04-09 | Release date: | 2009-07-21 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Insights into tRNA-Dependent Amidotransferase Evolution and Catalysis from the Structure of the Aquifex aeolicus Enzyme J.Mol.Biol., 391, 2009
|
|
7UR5
| allo-tRNAUTu1 in the A, P, and E sites of the E. coli ribosome | Descriptor: | allo-tRNAUTu1 | Authors: | Zhang, J, Krahn, N, Prabhakar, A, Vargas-Rodriguez, O, Krupkin, M, Fu, Z, Acosta-Reyes, F.J, Ge, X, Choi, J, Crnkovic, A, Ehrenberg, M, Viani Puglisi, E, Soll, D, Puglisi, J. | Deposit date: | 2022-04-21 | Release date: | 2022-08-10 | Last modified: | 2024-06-12 | Method: | ELECTRON MICROSCOPY (2.6 Å) | Cite: | Uncovering translation roadblocks during the development of a synthetic tRNA. Nucleic Acids Res., 50, 2022
|
|
5J4B
| Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | Authors: | Melnikov, S.V, Soll, D, Steitz, T.A, Polikanov, Y.S. | Deposit date: | 2016-03-31 | Release date: | 2016-04-27 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Insights into RNA binding by the anticancer drug cisplatin from the crystal structure of cisplatin-modified ribosome. Nucleic Acids Res., 44, 2016
|
|
5J4C
| Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (soaked) and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution | Descriptor: | 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... | Authors: | Melnikov, S.V, Soll, D, Steitz, T.A, Polikanov, Y.S. | Deposit date: | 2016-03-31 | Release date: | 2016-04-27 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Insights into RNA binding by the anticancer drug cisplatin from the crystal structure of cisplatin-modified ribosome. Nucleic Acids Res., 44, 2016
|
|