6IZY
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3AOI
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![BU of 3aoi by Molmil](/molmil-images/mine/3aoi) | RNA polymerase-Gfh1 complex (Crystal type 2) | Descriptor: | Anti-cleavage anti-GreA transcription factor Gfh1, DNA (5'-D(*GP*GP*TP*CP*TP*GP*TP*AP*TP*CP*AP*CP*GP*AP*GP*CP*CP*A*CP*CP*GP*CP*CP*GP*CP*AP*T)-3'), DNA-directed RNA polymerase subunit alpha, ... | Authors: | Tagami, S, Sekine, S, Kumarevel, T, Yamamoto, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2010-09-30 | Release date: | 2010-12-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (4.3 Å) | Cite: | Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein Nature, 468, 2010
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2CYA
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![BU of 2cya by Molmil](/molmil-images/mine/2cya) | Crystal structure of tyrosyl-tRNA synthetase from Aeropyrum pernix | Descriptor: | SULFATE ION, Tyrosyl-tRNA synthetase | Authors: | Kuratani, M, Sakai, H, Takahashi, M, Yanagisawa, T, Kobayashi, T, Murayama, K, Chen, L, Liu, Z.J, Wang, B.C, Kuroishi, C, Kuramitsu, S, Terada, T, Bessho, Y, Shirouzu, M, Sekine, S.I, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-06 | Release date: | 2005-11-22 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal Structures of Tyrosyl-tRNA Synthetases from Archaea J.Mol.Biol., 355, 2005
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3WOE
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![BU of 3woe by Molmil](/molmil-images/mine/3woe) | Crystal structure of P23-45 gp39 (6-109) bound to Thermus thermophilus RNA polymerase beta-flap domain | Descriptor: | DNA-directed RNA polymerase subunit beta, Putative uncharacterized protein | Authors: | Tagami, S, Sekine, S, Minakhin, L, Esyunina, D, Akasaka, R, Shirouzu, M, Kulbachinskiy, A, Severinov, K, Yokoyama, S. | Deposit date: | 2013-12-26 | Release date: | 2014-03-12 | Last modified: | 2015-03-25 | Method: | X-RAY DIFFRACTION (2.351 Å) | Cite: | Structural basis for promoter specificity switching of RNA polymerase by a phage factor. Genes Dev., 28, 2014
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7EEN
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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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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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3AOH
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![BU of 3aoh by Molmil](/molmil-images/mine/3aoh) | RNA polymerase-Gfh1 complex (Crystal type 1) | Descriptor: | Anti-cleavage anti-GreA transcription factor Gfh1, DNA (5'-D(*GP*GP*TP*CP*TP*GP*TP*AP*TP*CP*AP*CP*GP*AP*GP*CP*CP*AP*CP*CP*GP*CP*CP*GP*CP*AP*T)-3'), DNA-directed RNA polymerase subunit alpha, ... | Authors: | Tagami, S, Sekine, S, Kumarevel, T, Yamamoto, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2010-09-28 | Release date: | 2010-12-08 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (4.1 Å) | Cite: | Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein Nature, 468, 2010
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2CZJ
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![BU of 2czj by Molmil](/molmil-images/mine/2czj) | Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8 | Descriptor: | SsrA-binding protein, tmRNA (63-MER) | Authors: | Bessho, Y, Shibata, R, Sekine, S, Murayama, K, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-13 | Release date: | 2006-10-31 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (3.01 Å) | Cite: | Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA. Proc.Natl.Acad.Sci.Usa, 104, 2007
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2D1H
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![BU of 2d1h by Molmil](/molmil-images/mine/2d1h) | Crystal structure of ST1889 protein from thermoacidophilic archaeon Sulfolobus tokodaii | Descriptor: | 109aa long hypothetical transcriptional regulator | Authors: | Shinkai, A, Sekine, S, Terada, T, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-08-22 | Release date: | 2006-09-05 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | The putative DNA-binding protein Sto12a from the thermoacidophilic archaeon Sulfolobus tokodaii contains intrachain and interchain disulfide bonds. J.Mol.Biol., 372, 2007
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2CYC
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![BU of 2cyc by Molmil](/molmil-images/mine/2cyc) | Crystal structure of Tyrosyl-tRNA Synthetase complexed with L-tyrosine from Pyrococcus horikoshii | Descriptor: | TYROSINE, tyrosyl-tRNA synthetase | Authors: | Kuratani, M, Sakai, H, Takahashi, M, Yanagisawa, T, Kobayashi, T, Sakamoto, K, Terada, T, Shirouzu, M, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2005-07-06 | Release date: | 2005-11-22 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal Structures of Tyrosyl-tRNA Synthetases from Archaea J.Mol.Biol., 355, 2006
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2CXI
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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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2ZR2
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![BU of 2zr2 by Molmil](/molmil-images/mine/2zr2) | Crystal structure of seryl-tRNA synthetase from Pyrococcus horikoshii complexed with ATP | Descriptor: | ADENOSINE MONOPHOSPHATE, SULFATE ION, Seryl-tRNA synthetase | Authors: | Itoh, Y, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2008-08-22 | Release date: | 2008-09-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystallographic and mutational studies of seryl-tRNA synthetase from the archaeon Pyrococcus horikoshii. Rna Biol., 5, 2008
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3VRH
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![BU of 3vrh by Molmil](/molmil-images/mine/3vrh) | Crystal structure of ph0300 | Descriptor: | BICINE, Putative uncharacterized protein PH0300, ZINC ION | Authors: | Nakagawa, H, Kuratani, M, Goto-Ito, S, Ito, T, Sekine, S.I, Yokoyama, S. | Deposit date: | 2012-04-10 | Release date: | 2013-03-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystallographic and mutational studies on the tRNA thiouridine synthetase TtuA. Proteins, 2013
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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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2ZR3
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3W1J
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3AYH
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3W3S
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![BU of 3w3s by Molmil](/molmil-images/mine/3w3s) | Crystal structure of A. aeolicus tRNASec in complex with M. kandleri SerRS | Descriptor: | 5'-O-(N-(L-SERYL)-SULFAMOYL)ADENOSINE, PLATINUM (II) ION, SULFATE ION, ... | Authors: | Itoh, Y, Sekine, S, Yokoyama, S. | Deposit date: | 2012-12-27 | Release date: | 2013-02-13 | Last modified: | 2013-08-07 | Method: | X-RAY DIFFRACTION (3.095 Å) | Cite: | Tertiary structure of bacterial selenocysteine tRNA Nucleic Acids Res., 41, 2013
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3A98
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![BU of 3a98 by Molmil](/molmil-images/mine/3a98) | Crystal structure of the complex of the interacting regions of DOCK2 and ELMO1 | Descriptor: | Dedicator of cytokinesis protein 2, Engulfment and cell motility protein 1 | Authors: | Hanawa-Suetsugu, K, Kukimoto-Niino, M, Sekine, S, Ito, T, Mishima-Tsumagari, C, Terada, T, Shirouzu, M, Fukui, Y, Yokoyama, S. | Deposit date: | 2009-10-21 | Release date: | 2010-10-27 | Last modified: | 2019-09-04 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural basis for mutual relief of the Rac guanine nucleotide exchange factor DOCK2 and its partner ELMO1 from their autoinhibited forms. Proc.Natl.Acad.Sci.USA, 109, 2012
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3ADC
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![BU of 3adc by Molmil](/molmil-images/mine/3adc) | Crystal structure of O-phosphoseryl-tRNA kinase complexed with selenocysteine tRNA and AMPPNP (crystal type 2) | Descriptor: | L-seryl-tRNA(Sec) kinase, MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, ... | Authors: | Itoh, Y, Chiba, S, Sekine, S, Yokoyama, S. | Deposit date: | 2010-01-18 | Release date: | 2010-07-28 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structural Basis for the Major Role of O-Phosphoseryl-tRNA Kinase in the UGA-Specific Encoding of Selenocysteine Mol.Cell, 39, 2010
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2YXL
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![BU of 2yxl by Molmil](/molmil-images/mine/2yxl) | Crystal Structure of PH0851 | Descriptor: | 450aa long hypothetical fmu protein, SINEFUNGIN | Authors: | Hikida, Y, Kuratani, M, Bessho, Y, Ishii, R, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2007-04-26 | Release date: | 2008-04-29 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.55 Å) | Cite: | Structure of an archaeal homologue of the bacterial Fmu/RsmB/RrmB rRNA cytosine 5-methyltransferase Acta Crystallogr.,Sect.D, 66, 2010
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2ZRW
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![BU of 2zrw by Molmil](/molmil-images/mine/2zrw) | Crystal structure of Sulfolobus shibatae isopentenyl diphosphate isomerase in complex with FMN and IPP. | Descriptor: | FLAVIN MONONUCLEOTIDE, ISOPENTYL PYROPHOSPHATE, Isopentenyl-diphosphate delta-isomerase, ... | Authors: | Unno, H, Yamashita, S, Ikeda, Y, Sekiguchi, S, Yoshida, N, Yoshimura, T, Kusunoki, M, Nakayama, T, Nishino, T, Hemmi, H. | Deposit date: | 2008-09-01 | Release date: | 2009-01-20 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | New role of flavin as a general acid-base catalyst with no redox function in type 2 isopentenyl-diphosphate isomerase. J.Biol.Chem., 284, 2009
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2ZRX
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![BU of 2zrx by Molmil](/molmil-images/mine/2zrx) | Crystal structure of Sulfolobus shibatae isopentenyl diphosphate isomerase in complex with FMN and DMAPP. | Descriptor: | DIMETHYLALLYL DIPHOSPHATE, FLAVIN MONONUCLEOTIDE, Isopentenyl-diphosphate delta-isomerase, ... | Authors: | Unno, H, Yamashita, S, Ikeda, Y, Sekiguchi, S, Yoshida, N, Yoshimura, T, Kusunoki, M, Nakayama, T, Nishino, T, Hemmi, H. | Deposit date: | 2008-09-01 | Release date: | 2009-01-20 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | New role of flavin as a general acid-base catalyst with no redox function in type 2 isopentenyl-diphosphate isomerase. J.Biol.Chem., 284, 2009
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