2EFC
 
 | | Ara7-GDP/AtVps9a | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, Similarity to vacuolar protein sorting-associated protein VPS9, Small GTP-binding protein-like | | Authors: | Uejima, T, Ihara, K, Goh, T, Ito, E, Sunada, M, Ueda, T, Nakano, A, Wakatsuki, S. | | Deposit date: | 2007-02-22 | | Release date: | 2008-02-26 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.09 Å) | | Cite: | GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system
J.Biol.Chem., 285, 2010
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2EFD
 | | Ara7/AtVps9a | | Descriptor: | Similarity to vacuolar protein sorting-associated protein VPS9, Small GTP-binding protein-like | | Authors: | Uejima, T, Ihara, K, Wakatsuki, S. | | Deposit date: | 2007-02-22 | | Release date: | 2008-02-26 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system
J.Biol.Chem., 285, 2010
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2EFH
 | | Ara7-GDP/AtVps9a(D185N) | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, Similarity to vacuolar protein sorting-associated protein VPS9, Small GTP-binding protein-like | | Authors: | Ihara, K, Uejima, T, Wakatsuki, S. | | Deposit date: | 2007-02-22 | | Release date: | 2008-02-26 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system
J.Biol.Chem., 285, 2010
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2EFE
 | | Ara7-GDPNH2/AtVps9a | | Descriptor: | AMINOPHOSPHONIC ACID-GUANYLATE ESTER, Similarity to vacuolar protein sorting-associated protein VPS9, Small GTP-binding protein-like | | Authors: | Ihara, K, Uejima, T, Wakatsuki, S. | | Deposit date: | 2007-02-22 | | Release date: | 2008-02-26 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.08 Å) | | Cite: | GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5/Vps9 system
J.Biol.Chem., 285, 2010
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3F89
 | | NEMO CoZi domain | | Descriptor: | NF-kappa-B essential modulator | | Authors: | Rahighi, S, Ikeda, F, Kawasaki, M, Akutsu, M, Suzuki, N, Kato, R, Kensche, T, Uejima, T, Bloor, S, Komander, D, Randow, F, Wakatsuki, S, Dikic, I. | | Deposit date: | 2008-11-11 | | Release date: | 2009-03-24 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation
Cell(Cambridge,Mass.), 136, 2009
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9J0P
 | | Arrested elongation complex of mammalian RNA polymerase II with nucleosome (AEC2-nuc) | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Naganuma, M, Kujirai, T, Ehara, H, Uejima, T, Ito, T, Goto, M, Aoki, M, Henmi, M, Miyamoto-Kohno, S, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2024-08-02 | | Release date: | 2025-02-05 | | Last modified: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Structural insights into promoter-proximal pausing of RNA polymerase II at +1 nucleosome.
Sci Adv, 11, 2025
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9J0N
 | | Paused elongation complex of mammalian RNA polymerase II with nucleosome (PEC2-nuc) | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Naganuma, M, Kujirai, T, Ehara, H, Uejima, T, Ito, T, Goto, M, Aoki, M, Henmi, M, Miyamoto-Kohno, S, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2024-08-02 | | Release date: | 2025-02-05 | | Last modified: | 2025-06-18 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structural insights into promoter-proximal pausing of RNA polymerase II at +1 nucleosome.
Sci Adv, 11, 2025
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9J0O
 | | Arrested elongation complex of mammalian RNA polymerase II with nucleosome (AEC1-nuc) | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB11-a, ... | | Authors: | Naganuma, M, Kujirai, T, Ehara, H, Uejima, T, Ito, T, Goto, M, Aoki, M, Henmi, M, Miyamoto-Kohno, S, Shirouzu, M, Kurumizaka, H, Sekine, S. | | Deposit date: | 2024-08-02 | | Release date: | 2025-02-05 | | Last modified: | 2025-06-18 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Structural insights into promoter-proximal pausing of RNA polymerase II at +1 nucleosome.
Sci Adv, 11, 2025
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2ZVO
 | | NEMO CoZi domain in complex with diubiquitin in C2 space group | | Descriptor: | NF-kappa-B essential modulator, UBC protein | | Authors: | Rahighi, S, Ikeda, F, Kawasaki, M, Akutsu, M, Suzuki, N, Kato, R, Kensche, T, Uejima, T, Bloor, S, Komander, D, Randow, F, Wakatsuki, S, Dikic, I. | | Deposit date: | 2008-11-12 | | Release date: | 2009-03-24 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation
Cell(Cambridge,Mass.), 136, 2009
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2ZVN
 | | NEMO CoZi domain incomplex with diubiquitin in P212121 space group | | Descriptor: | NF-kappa-B essential modulator, UBC protein | | Authors: | Rahighi, S, Ikeda, F, Kawasaki, M, Akutsu, M, Suzuki, N, Kato, R, Kensche, T, Uejima, T, Bloor, S, Komander, D, Randow, F, Wakatsuki, S, Dikic, I. | | Deposit date: | 2008-11-12 | | Release date: | 2009-03-24 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation
Cell(Cambridge,Mass.), 136, 2009
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4G01
 | | ARA7-GDP-Ca2+/VPS9a | | Descriptor: | CALCIUM ION, GUANOSINE-5'-DIPHOSPHATE, Ras-related protein RABF2b, ... | | Authors: | Ihara, K. | | Deposit date: | 2012-07-09 | | Release date: | 2013-02-27 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Direct metal recognition by guanine nucleotide-exchange factor in the initial step of the exchange reaction
Acta Crystallogr.,Sect.D, 69, 2013
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3BC1
 | | Crystal Structure of the complex Rab27a-Slp2a | | Descriptor: | MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER, Ras-related protein Rab-27A, ... | | Authors: | Chavas, L.M.G, Ihara, K, Kawasaki, M, Wakatsuki, S. | | Deposit date: | 2007-11-12 | | Release date: | 2008-09-02 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Elucidation of Rab27 recruitment by its effectors: structure of Rab27a bound to Exophilin4/Slp2-a
Structure, 16, 2008
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8H0W
 | | RNA polymerase II transcribing a chromatosome (type II) | | Descriptor: | DNA (261-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Hirano, R, Ehara, H, Tomoya, K, Takizawa, Y, Sekine, S, Kurumizaka, H. | | Deposit date: | 2022-09-30 | | Release date: | 2022-12-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (4.6 Å) | | Cite: | Structural basis of RNA polymerase II transcription on the chromatosome containing linker histone H1.
Nat Commun, 13, 2022
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8H0V
 | | RNA polymerase II transcribing a chromatosome (type I) | | Descriptor: | DNA (261-MER), DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Hirano, R, Ehara, H, Tomoya, K, Takizawa, Y, Sekine, S, Kurumizaka, H. | | Deposit date: | 2022-09-30 | | Release date: | 2022-12-07 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Structural basis of RNA polymerase II transcription on the chromatosome containing linker histone H1.
Nat Commun, 13, 2022
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5Y7Z
 | | Complex structure of cyclin G-associated kinase with gefitinib | | Descriptor: | Cyclin-G-associated kinase, Gefitinib, NANOBODY, ... | | Authors: | Ohbayashi, N, Murayama, K, Kato-Murayama, M, Shirouzu, M. | | Deposit date: | 2017-08-18 | | Release date: | 2018-08-29 | | Last modified: | 2024-11-13 | | Method: | X-RAY DIFFRACTION (2.804 Å) | | Cite: | Structural Basis for the Inhibition of Cyclin G-Associated Kinase by Gefitinib.
ChemistryOpen, 7, 2018
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5Y80
 | | Complex structure of cyclin G-associated kinase with gefitinib | | Descriptor: | Cyclin-G-associated kinase, Gefitinib, NANOBODY | | Authors: | Ohbayashi, N, Murayama, K, Kato-Murayama, M, Shirouzu, M. | | Deposit date: | 2017-08-18 | | Release date: | 2018-08-29 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural Basis for the Inhibition of Cyclin G-Associated Kinase by Gefitinib.
ChemistryOpen, 7, 2018
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