2R1C
 
 | | Coordinates of the thermus thermophilus ribosome binding factor A (RbfA) homology model as fitted into the CRYO-EM map of a 30S-RBFA complex | | Descriptor: | Ribosome-binding factor A | | Authors: | Datta, P.P, Wilson, D.N, Kawazoe, M, Swami, N.K, Kaminishi, T, Sharma, M.R, Booth, T.M, Takemoto, C, Fucini, P, Yokoyama, S, Agrawal, R.K. | | Deposit date: | 2007-08-22 | | Release date: | 2008-03-18 | | Last modified: | 2024-03-13 | | Method: | ELECTRON MICROSCOPY (12.5 Å) | | Cite: | Structural aspects of RbfA action during small ribosomal subunit assembly.
Mol.Cell, 28, 2007
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1IYF
 | | Solution structure of ubiquitin-like domain of human parkin | | Descriptor: | parkin | | Authors: | Sakata, E, Yamaguchi, Y, Kurimoto, E, Kikuchi, J, Yokoyama, S, Kawahara, H, Yokosawa, H, Hattori, N, Mizuno, Y, Tanaka, K, Kato, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-08-13 | | Release date: | 2003-03-25 | | Last modified: | 2023-12-27 | | Method: | SOLUTION NMR | | Cite: | Parkin binds the Rpn10 subunit of 26S proteasomes through its ubiquitin-like domain
EMBO REP., 4, 2003
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2OZP
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2KBO
 | | Structure, interaction, and real-time monitoring of the enzymatic reaction of wild type APOBEC3G | | Descriptor: | DNA dC->dU-editing enzyme APOBEC-3G, ZINC ION | | Authors: | Furukawa, A, Nagata, T, Matsugami, A, Habu, Y, Sugiyama, R, Hayashi, F, Kobayashi, N, Yokoyama, S, Takaku, H, Katahira, M. | | Deposit date: | 2008-12-04 | | Release date: | 2009-02-03 | | Last modified: | 2022-03-16 | | Method: | SOLUTION NMR | | Cite: | Structure, interaction and real-time monitoring of the enzymatic reaction of wild-type APOBEC3G
Embo J., 28, 2009
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2P2O
 | | Crystal structure of maltose transacetylase from Geobacillus kaustophilus P2(1) crystal form | | Descriptor: | Maltose transacetylase | | Authors: | Liu, Z.J, Li, Y, Chen, L, Zhu, J, Rose, J.P, Ebihara, A, Yokoyama, S, Wang, B.C, Southeast Collaboratory for Structural Genomics (SECSG), RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2007-03-07 | | Release date: | 2007-05-15 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (1.74 Å) | | Cite: | Crystal Structure of Maltose Transacetylase from Geobacillus Kaustophilus at 1.8 Angstrom Resolution
To be Published
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2PMH
 | | Crystal structure of Thr132Ala of ST1022 from Sulfolobus tokodaii | | Descriptor: | 150aa long hypothetical transcriptional regulator, GLUTAMINE, MAGNESIUM ION, ... | | Authors: | Kumarevel, T.S, Karthe, P, Nakano, N, Shinkai, A, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2007-04-22 | | Release date: | 2008-04-22 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of glutamine receptor protein from Sulfolobus tokodaii strain 7 in complex with its effector L-glutamine: implications of effector binding in molecular association and DNA binding
Nucleic Acids Res., 36, 2008
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1IV0
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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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4YZO
 | | Crystal Structure Analysis of Thiolase-like protein, ST0096 from Sulfolobus Tokodaii | | Descriptor: | ACETATE ION, CALCIUM ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Padmanabhan, B, Manjula, R, Yokoyama, S, Bessho, Y. | | Deposit date: | 2015-03-25 | | Release date: | 2016-03-30 | | Last modified: | 2020-02-19 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal Structure Analysis of Thiolase-like protein, ST0096 from Sulfolobus Tokodaii
To Be Published
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5AVC
 | | human nucleosome core particle | | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S. | | Deposit date: | 2015-06-12 | | Release date: | 2015-12-23 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
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5AV6
 | | human nucleosome core particle | | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S. | | Deposit date: | 2015-06-12 | | Release date: | 2015-12-23 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
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5B2I
 | | Human nucleosome containing CpG unmethylated DNA | | Descriptor: | DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Fujii, Y, Wakamori, M, Umehara, T, Yokoyama, S. | | Deposit date: | 2016-01-16 | | Release date: | 2016-06-15 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation.
Febs Open Bio, 6, 2016
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5AVB
 | | human nucleosome core particle | | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S. | | Deposit date: | 2015-06-12 | | Release date: | 2015-12-23 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
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5B2J
 | | Human nucleosome containing CpG methylated DNA | | Descriptor: | DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Fujii, Y, Wakamori, M, Umehara, T, Yokoyama, S. | | Deposit date: | 2016-01-18 | | Release date: | 2016-06-15 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation.
Febs Open Bio, 6, 2016
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5AV9
 | | human nucleosome core particle | | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S. | | Deposit date: | 2015-06-12 | | Release date: | 2015-12-23 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
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5B6O
 | | Crystal structure of MS8104 | | Descriptor: | 3C-like proteinase | | Authors: | Wang, H, Kim, Y, Muramatsu, T, Takemoto, C, Shirouzu, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2016-05-31 | | Release date: | 2016-06-15 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.202 Å) | | Cite: | SARS-CoV 3CL protease cleaves its C-terminal autoprocessing site by novel subsite cooperativity
Proc. Natl. Acad. Sci. U.S.A., 113, 2016
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5AV8
 | | human nucleosome core particle | | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S. | | Deposit date: | 2015-06-12 | | Release date: | 2015-12-23 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
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5B2G
 | | Crystal structure of human claudin-4 in complex with C-terminal fragment of Clostridium perfringens enterotoxin | | Descriptor: | Endolysin,Claudin-4, Heat-labile enterotoxin B chain | | Authors: | Shinoda, T, Kimura-Someya, T, Shirouzu, M, Yokoyama, S. | | Deposit date: | 2016-01-15 | | Release date: | 2016-10-05 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (3.5 Å) | | Cite: | Structural basis for disruption of claudin assembly in tight junctions by an enterotoxin
Sci Rep, 6, 2016
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5AV5
 | | human nucleosome core particle | | Descriptor: | DNA (147-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | | Authors: | Wakamori, M, Fujii, Y, Umehara, T, Yokoyama, S. | | Deposit date: | 2015-06-11 | | Release date: | 2015-12-23 | | Last modified: | 2020-02-19 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation
Sci Rep, 5, 2015
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5B04
 | | Crystal structure of the eukaryotic translation initiation factor 2B from Schizosaccharomyces pombe | | Descriptor: | PHOSPHATE ION, Probable translation initiation factor eIF-2B subunit beta, Probable translation initiation factor eIF-2B subunit delta, ... | | Authors: | Kashiwagi, K, Ito, T, Yokoyama, S. | | Deposit date: | 2015-10-27 | | Release date: | 2016-02-24 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.994 Å) | | Cite: | Crystal structure of eukaryotic translation initiation factor 2B
Nature, 531, 2016
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5C2K
 | | Crystal structure of the fusion protein linked by RhoA and the GAP domain of MgcRacGAP | | Descriptor: | ALUMINUM FLUORIDE, GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, ... | | Authors: | Murayama, K, Kato-Murayama, M, Hosaka, T, Kitamura, T, Yokoyama, S, Shirouzu, M. | | Deposit date: | 2015-06-16 | | Release date: | 2016-06-22 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.42 Å) | | Cite: | Structural basis of G-protein target alternation of MgcRacGAP by phospholylation
To Be Published
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5C2J
 | | Complex structure of the GAP domain of MgcRacGAP and Cdc42 | | Descriptor: | ALUMINUM FLUORIDE, Cell division control protein 42 homolog, GUANOSINE-5'-DIPHOSPHATE, ... | | Authors: | Murayama, K, Kato-Murayama, M, Hosaka, T, Kitamura, T, Yokoyama, S, Shirouzu, M. | | Deposit date: | 2015-06-16 | | Release date: | 2016-06-22 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural basis of G-protein target alternation of MgcRacGAP by phospholylation
To Be Published
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1J1V
 | | Crystal structure of DnaA domainIV complexed with DnaAbox DNA | | Descriptor: | 5'-D(*CP*CP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*A)-3', 5'-D(*TP*GP*TP*TP*AP*TP*CP*CP*AP*CP*AP*GP*G)-3', Chromosomal replication initiator protein dnaA | | Authors: | Fujikawa, N, Kurumizaka, H, Nureki, O, Terada, T, Shirouzu, M, Katayama, T, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2002-12-18 | | Release date: | 2003-04-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structural basis of replication origin recognition by the DnaA protein
NUCLEIC ACIDS RES., 31, 2003
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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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1JZQ
 | | Isoleucyl-tRNA synthetase Complexed with Isoleucyl-adenylate analogue | | Descriptor: | Isoleucyl-tRNA synthetase, N-[ISOLEUCINYL]-N'-[ADENOSYL]-DIAMINOSUFONE, ZINC ION | | Authors: | Nakama, T, Nureki, O, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2001-09-17 | | Release date: | 2001-12-21 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structural basis for the recognition of isoleucyl-adenylate and an antibiotic, mupirocin, by isoleucyl-tRNA synthetase.
J.Biol.Chem., 276, 2001
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