3DBG
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3AQP
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![BU of 3aqp by Molmil](/molmil-images/mine/3aqp) | Crystal structure of SecDF, a translocon-associated membrane protein, from Thermus thrmophilus | Descriptor: | Probable SecDF protein-export membrane protein | Authors: | Tsukazaki, T, Mori, H, Echizen, Y, Ishitani, R, Fukai, S, Tanaka, T, Perederina, A, Vassylyev, D.G, Kohno, T, Ito, K, Nureki, O. | Deposit date: | 2010-11-16 | Release date: | 2011-05-18 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Structure and function of a membrane component SecDF that enhances protein export Nature, 474, 2011
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1S0V
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![BU of 1s0v by Molmil](/molmil-images/mine/1s0v) | Structural basis for substrate selection by T7 RNA polymerase | Descriptor: | 5'-D(*G*GP*GP*AP*AP*TP*CP*GP*AP*TP*AP*TP*CP*GP*CP*CP*GP*C)-3', 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*C)-3', 5'-R(*AP*AP*CP*U*GP*CP*GP*GP*CP*GP*AP*U)-3', ... | Authors: | Temiakov, D, Patlan, V, Anikin, M, McAllister, W.T, Yokoyama, S, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2004-01-05 | Release date: | 2004-02-24 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Structural basis for substrate selection by t7 RNA polymerase. Cell(Cambridge,Mass.), 116, 2004
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3E0J
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![BU of 3e0j by Molmil](/molmil-images/mine/3e0j) | X-ray structure of the complex of regulatory subunits of human DNA polymerase delta | Descriptor: | DNA polymerase subunit delta-2, DNA polymerase subunit delta-3 | Authors: | Baranovskiy, A.G, Babayeva, N.D, Pavlov, Y.I, Vassylyev, D.G, Tahirov, T.H. | Deposit date: | 2008-07-31 | Release date: | 2008-12-16 | Last modified: | 2020-10-21 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | X-ray structure of the complex of regulatory subunits of human DNA polymerase delta. Cell Cycle, 7, 2008
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2EUL
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![BU of 2eul by Molmil](/molmil-images/mine/2eul) | Structure of the transcription factor Gfh1. | Descriptor: | ZINC ION, anti-cleavage anti-GreA transcription factor Gfh1 | Authors: | Symersky, J, Perederina, A, Vassylyeva, M.N, Svetlov, V, Artsimovitch, I, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-10-28 | Release date: | 2005-11-15 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Regulation through the RNA Polymerase Secondary Channel: STRUCTURAL AND FUNCTIONAL VARIABILITY OF THE COILED-COIL TRANSCRIPTION FACTORS. J.Biol.Chem., 281, 2006
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2A6E
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![BU of 2a6e by Molmil](/molmil-images/mine/2a6e) | Crystal structure of the T. Thermophilus RNA polymerase holoenzyme | Descriptor: | DNA-directed RNA polymerase alpha chain, DNA-directed RNA polymerase beta chain, DNA-directed RNA polymerase beta' chain, ... | Authors: | Artsimovitch, I, Vassylyeva, M.N, Svetlov, D, Svetlov, V, Perederina, A, Igarashi, N, Matsugaki, N, Wakatsuki, S, Tahirov, T.H, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-02 | Release date: | 2005-09-20 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins. Cell(Cambridge,Mass.), 122, 2005
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1SMY
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![BU of 1smy by Molmil](/molmil-images/mine/1smy) | Structural basis for transcription regulation by alarmone ppGpp | Descriptor: | DNA-directed RNA polymerase alpha chain, DNA-directed RNA polymerase beta chain, DNA-directed RNA polymerase beta' chain, ... | Authors: | Artsimovitch, I, Patlan, V, Sekine, S, Vassylyeva, M.N, Hosaka, T, Ochi, K, Yokoyama, S, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2004-03-10 | Release date: | 2004-05-18 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Structural basis for transcription regulation by alarmone ppGpp Cell(Cambridge,Mass.), 117, 2004
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1J09
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![BU of 1j09 by Molmil](/molmil-images/mine/1j09) | Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with ATP and Glu | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, GLUTAMIC ACID, Glutamyl-tRNA synthetase, ... | 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 (1.8 Å) | Cite: | ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding EMBO J., 22, 2003
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1B70
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![BU of 1b70 by Molmil](/molmil-images/mine/1b70) | PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINE | Descriptor: | MAGNESIUM ION, PHENYLALANINE, PHENYLALANYL-TRNA SYNTHETASE | Authors: | Reshetnikova, L, Moor, N, Lavrik, O, Vassylyev, D.G. | Deposit date: | 1999-01-26 | Release date: | 2000-02-09 | Last modified: | 2023-08-09 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Crystal structures of phenylalanyl-tRNA synthetase complexed with phenylalanine and a phenylalanyl-adenylate analogue J.Mol.Biol., 287, 1999
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1B7Y
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![BU of 1b7y by Molmil](/molmil-images/mine/1b7y) | PHENYLALANYL TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINYL-ADENYLATE | Descriptor: | ADENOSINE-5'-[PHENYLALANINOL-PHOSPHATE], MAGNESIUM ION, PROTEIN (PHENYLALANYL-TRNA SYNTHETASE) | Authors: | Reshetnikova, L, Moor, N, Lavrik, O, Vassylyev, D.G. | Deposit date: | 1999-01-26 | Release date: | 2000-01-26 | Last modified: | 2023-08-09 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Crystal structures of phenylalanyl-tRNA synthetase complexed with phenylalanine and a phenylalanyl-adenylate analogue. J.Mol.Biol., 287, 1999
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1AT9
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![BU of 1at9 by Molmil](/molmil-images/mine/1at9) | STRUCTURE OF BACTERIORHODOPSIN AT 3.0 ANGSTROM DETERMINED BY ELECTRON CRYSTALLOGRAPHY | Descriptor: | BACTERIORHODOPSIN, RETINAL | Authors: | Kimura, Y, Vassylyev, D.G, Miyazawa, A, Kidera, A, Matsushima, M, Mitsuoka, K, Murata, K, Hirai, T, Fujiyoshi, Y. | Deposit date: | 1997-08-20 | Release date: | 1998-09-16 | Last modified: | 2024-06-05 | Method: | ELECTRON CRYSTALLOGRAPHY (2.8 Å) | Cite: | Surface of bacteriorhodopsin revealed by high-resolution electron crystallography. Nature, 389, 1997
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2A6H
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![BU of 2a6h by Molmil](/molmil-images/mine/2a6h) | Crystal structure of the T. thermophilus RNA polymerase holoenzyme in complex with antibiotic sterptolydigin | Descriptor: | DNA-directed RNA polymerase alpha chain, DNA-directed RNA polymerase beta chain, DNA-directed RNA polymerase beta' chain, ... | Authors: | Temiakov, D, Zenkin, N, Vassylyeva, M.N, Perederina, A, Tahirov, T.H, Savkina, M, Zorov, S, Nikiforov, V, Igarashi, N, Matsugaki, N, Wakatsuki, S, Severinov, K, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-02 | Release date: | 2005-09-20 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Structural basis of transcription inhibition by antibiotic streptolydigin. Mol.Cell, 19, 2005
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1VMO
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![BU of 1vmo by Molmil](/molmil-images/mine/1vmo) | CRYSTAL STRUCTURE OF VITELLINE MEMBRANE OUTER LAYER PROTEIN I (VMO-I): A FOLDING MOTIF WITH HOMOLOGOUS GREEK KEY STRUCTURES RELATED BY AN INTERNAL THREE-FOLD SYMMETRY | Descriptor: | VITELLINE MEMBRANE OUTER LAYER PROTEIN I | Authors: | Shimizu, T, Vassylyev, D.G, Kido, S, Doi, Y, Morikawa, K. | Deposit date: | 1994-01-06 | Release date: | 1994-05-31 | Last modified: | 2024-06-05 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structure of vitelline membrane outer layer protein I (VMO-I): a folding motif with homologous Greek key structures related by an internal three-fold symmetry. EMBO J., 13, 1994
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1VFG
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![BU of 1vfg by Molmil](/molmil-images/mine/1vfg) | Crystal structure of tRNA nucleotidyltransferase complexed with a primer tRNA and an incoming ATP analog | Descriptor: | DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, RNA (75-MER), poly A polymerase | Authors: | Tomita, K, Fukai, S, Ishitani, R, Ueda, T, Takeuchi, N, Vassylyev, D.G, Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2004-04-13 | Release date: | 2004-08-10 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Structural basis for template-independent RNA polymerization. Nature, 430, 2004
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2A69
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![BU of 2a69 by Molmil](/molmil-images/mine/2a69) | Crystal structure of the T. Thermophilus RNA polymerase holoenzyme in complex with antibiotic rifapentin | Descriptor: | DNA-directed RNA polymerase alpha chain, DNA-directed RNA polymerase beta chain, DNA-directed RNA polymerase beta' chain, ... | Authors: | Artsimovitch, I, Vassylyeva, M.N, Svetlov, D, Svetlov, V, Perederina, A, Igarashi, N, Matsugaki, N, Wakatsuki, S, Tahirov, T.H, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-02 | Release date: | 2005-09-20 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins. Cell(Cambridge,Mass.), 122, 2005
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2A68
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![BU of 2a68 by Molmil](/molmil-images/mine/2a68) | Crystal structure of the T. thermophilus RNA polymerase holoenzyme in complex with antibiotic rifabutin | Descriptor: | DNA-directed RNA polymerase alpha chain, DNA-directed RNA polymerase beta chain, DNA-directed RNA polymerase beta' chain, ... | Authors: | Artsimovitch, I, Vassylyeva, M.N, Svetlov, D, Svetlov, V, Perederina, A, Igarashi, N, Matsugaki, N, Wakatsuki, S, Tahirov, T.H, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-01 | Release date: | 2005-09-20 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins. Cell(Cambridge,Mass.), 122, 2005
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1HJR
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1IVS
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![BU of 1ivs by Molmil](/molmil-images/mine/1ivs) | CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE | Descriptor: | N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, Valyl-tRNA synthetase, tRNA (Val) | Authors: | Fukai, S, Nureki, O, Sekine, S.-I, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2002-03-29 | Release date: | 2003-02-11 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase RNA, 9, 2003
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3HTX
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![BU of 3htx by Molmil](/molmil-images/mine/3htx) | Crystal structure of small RNA methyltransferase HEN1 | Descriptor: | 5'-R(*GP*AP*UP*UP*UP*CP*UP*CP*UP*CP*UP*GP*CP*AP*AP*GP*CP*GP*AP*AP*AP*G)-3', 5'-R(P*UP*UP*CP*GP*CP*UP*UP*GP*CP*AP*GP*AP*GP*AP*GP*AP*AP*AP*UP*CP*AP*C)-3', HEN1, ... | Authors: | Huang, Y, Ji, L.-J, Huang, Q.-C, Vassylyev, D.G, Chen, X.-M, Ma, J.-B. | Deposit date: | 2009-06-12 | Release date: | 2009-09-29 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Structural insights into mechanisms of the small RNA methyltransferase HEN1. Nature, 461, 2009
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1POY
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![BU of 1poy by Molmil](/molmil-images/mine/1poy) | SPERMIDINE/PUTRESCINE-BINDING PROTEIN COMPLEXED WITH SPERMIDINE (DIMER FORM) | Descriptor: | SPERMIDINE, SPERMIDINE/PUTRESCINE-BINDING PROTEIN | Authors: | Sugiyama, S, Vassylyev, D.G, Matsushima, M, Morikawa, K. | Deposit date: | 1996-02-02 | Release date: | 1996-07-11 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Crystal structure of PotD, the primary receptor of the polyamine transport system in Escherichia coli. J.Biol.Chem., 271, 1996
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1GAX
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![BU of 1gax by Molmil](/molmil-images/mine/1gax) | 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
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1H38
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![BU of 1h38 by Molmil](/molmil-images/mine/1h38) | Structure of a T7 RNA polymerase elongation complex at 2.9A resolution | Descriptor: | 5'-D(*GP*GP*GP*AP*AP*TP*CP*GP*AP*CP *AP*TP*CP*GP*CP*CP*GP*C)-3', 5'-D(*GP*TP*CP*GP*AP*TP*TP*CP*CP*CP)-3', 5'-R(*AP*AP*CP*UP*GP*CP*GP*GP*CP*GP *AP*U)-3', ... | Authors: | Tahirov, T.H, Temyakov, D, Anikin, M, Patlan, V, McAllister, W.T, Vassylyev, D.G, Yokoyama, S. | Deposit date: | 2002-08-24 | Release date: | 2002-11-20 | Last modified: | 2023-12-13 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structure of a T7 RNA Polymerase Elongation Complex at 2.9 A Resolution Nature, 420, 2002
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1FL0
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![BU of 1fl0 by Molmil](/molmil-images/mine/1fl0) | CRYSTAL STRUCTURE OF THE EMAP2/RNA-BINDING DOMAIN OF THE P43 PROTEIN FROM HUMAN AMINOACYL-TRNA SYNTHETASE COMPLEX | Descriptor: | ENDOTHELIAL-MONOCYTE ACTIVATING POLYPEPTIDE II | Authors: | Renault, L, Kerjan, P, Pasqualato, S, Menetrey, J, Robinson, J.-C, Kawaguchi, S, Vassylyev, D.G, Yokoyama, S, Mirande, M, Cherfils, J. | Deposit date: | 2000-08-11 | Release date: | 2000-12-06 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Structure of the EMAPII domain of human aminoacyl-tRNA synthetase complex reveals evolutionary dimer mimicry. EMBO J., 20, 2001
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1IPA
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![BU of 1ipa by Molmil](/molmil-images/mine/1ipa) | 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
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1IYW
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![BU of 1iyw by Molmil](/molmil-images/mine/1iyw) | Preliminary Structure of Thermus thermophilus Ligand-Free Valyl-tRNA Synthetase | Descriptor: | Valyl-tRNA Synthetase | Authors: | Fukai, S, Nureki, O, Sekine, S, Shimada, A, Vassylyev, D.G, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2002-09-10 | Release date: | 2003-06-17 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (4 Å) | Cite: | Mechanism of molecular interactions for tRNA(Val) recognition by valyl-tRNA synthetase RNA, 9, 2003
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