1X55
 
 | | Crystal structure of asparaginyl-tRNA synthetase from Pyrococcus horikoshii complexed with asparaginyl-adenylate analogue | | Descriptor: | 5'-O-[N-(L-ASPARAGINYL)SULFAMOYL]ADENOSINE, Asparaginyl-tRNA synthetase, MAGNESIUM ION, ... | | Authors: | Iwasaki, W, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-05-15 | | Release date: | 2006-05-23 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural Basis of the Water-assisted Asparagine Recognition by Asparaginyl-tRNA Synthetase.
J.Mol.Biol., 360, 2006
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1X54
 | | Crystal structure of asparaginyl-tRNA synthetase from Pyrococcus horikoshii complexed with asparaginyl-adenylate | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 4-AMINO-1,4-DIOXOBUTAN-2-AMINIUM ADENOSINE-5'-MONOPHOSPHATE, Asparaginyl-tRNA synthetase, ... | | Authors: | Iwasaki, W, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-05-15 | | Release date: | 2006-05-23 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Structural Basis of the Water-assisted Asparagine Recognition by Asparaginyl-tRNA Synthetase.
J.Mol.Biol., 360, 2006
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1WF3
 | | Crystal structure of GTP-binding protein TT1341 from Thermus thermophilus HB8 | | Descriptor: | GLYCEROL, GTP-binding protein, MAGNESIUM ION, ... | | Authors: | Kawazoe, M, Hori-Takemoto, C, Kaminishi, T, Sekine, S, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2004-05-25 | | Release date: | 2004-11-25 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.88 Å) | | Cite: | Crystal structure of GTP-binding protein TT1341 from Thermus thermophilus HB8
To be Published
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1WNF
 | | Crystal Structure of PH0066 from Pyrococcus horikoshii | | Descriptor: | 1,2-ETHANEDIOL, L-asparaginase | | Authors: | Ihsanawati, Sekine, S, Murayama, K, Sugawara, M, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2004-08-02 | | Release date: | 2005-02-02 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Crystal Structure of PH0066 from Pyrococcus horikoshii
To be Published
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1WWR
 | | Crystal structure of tRNA adenosine deaminase TadA from Aquifex aeolicus | | Descriptor: | ZINC ION, tRNA adenosine deaminase TadA | | Authors: | Kuratani, M, Ishii, R, Bessho, Y, Fukunaga, R, Sengoku, T, Sekine, S, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2005-01-12 | | Release date: | 2005-02-01 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal Structure of tRNA Adenosine Deaminase (TadA) from Aquifex aeolicus
J.Biol.Chem., 280, 2005
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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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3WOF
 | | Crystal structure of P23-45 gp39 (6-132) 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: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.298 Å) | | Cite: | Structural basis for promoter specificity switching of RNA polymerase by a phage factor.
Genes Dev., 28, 2014
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3WOD
 | | RNA polymerase-gp39 complex | | Descriptor: | DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase subunit beta', ... | | 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: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.6 Å) | | Cite: | Structural basis for promoter specificity switching of RNA polymerase by a phage factor.
Genes Dev., 28, 2014
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3W1H
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3W1J
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3W1I
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3W1K
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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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6INQ
 | | RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA (+1 position) | | Descriptor: | DNA (198-MER), DNA (31-MER), DNA-directed RNA polymerase subunit, ... | | Authors: | Kujirai, T, Ehara, H, Fujino, Y, Shirouzu, M, Sekine, S, Kurumizaka, H. | | Deposit date: | 2018-10-26 | | Release date: | 2019-04-03 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (6.9 Å) | | Cite: | Structural basis of the nucleosome transition during RNA polymerase II passage.
Science, 362, 2018
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3AYH
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2YX0
 | | Crystal structure of P. horikoshii TYW1 | | Descriptor: | radical sam enzyme | | Authors: | Goto-Ito, S, Ishii, R, Ito, T, Shibata, R, Fusatomi, E, Sekine, S, Bessho, Y, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2007-04-23 | | Release date: | 2007-10-30 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.21 Å) | | Cite: | Structure of an archaeal TYW1, the enzyme catalyzing the second step of wye-base biosynthesis
Acta Crystallogr.,Sect.D, 63, 2007
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3WCO
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3WQY
 | | Crystal structure of Archaeoglobus fulgidus alanyl-tRNA synthetase in complex with wild-type tRNA(Ala) having G3.U70 | | Descriptor: | '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADENOSINE, Alanine--tRNA ligase, MAGNESIUM ION, ... | | Authors: | Naganuma, M, Sekine, S, Yokoyama, S. | | Deposit date: | 2014-02-05 | | Release date: | 2014-06-18 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | The selective tRNA aminoacylation mechanism based on a single G.U pair
Nature, 510, 2014
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3WCN
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3WQZ
 | | Crystal structure of Archaeoglobus fulgidus alanyl-tRNA synthetase in complex with a tRNA(Ala) variant having A3.U70 | | Descriptor: | '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADENOSINE, Alanine--tRNA ligase, RNA (75-MER), ... | | Authors: | Naganuma, M, Sekine, S, Yokoyama, S. | | Deposit date: | 2014-02-05 | | Release date: | 2014-06-18 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (3.489 Å) | | Cite: | The selective tRNA aminoacylation mechanism based on a single G.U pair
Nature, 510, 2014
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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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2ZR3
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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
 | | 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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3ADD
 | | Crystal structure of O-phosphoseryl-tRNA kinase complexed with selenocysteine tRNA and AMPPNP (crystal type 3) | | 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 (2.4 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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