3WMR
 
 | | Crystal structure of VinJ | | Descriptor: | 1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE, GLYCEROL, Proline iminopeptidase | | Authors: | Shinohara, Y, Miyanaga, A, Kudo, F, Eguchi, T. | | Deposit date: | 2013-11-22 | | Release date: | 2014-02-05 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | The crystal structure of the amidohydrolase VinJ shows a unique hydrophobic tunnel for its interaction with polyketide substrates
Febs Lett., 588, 2014
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5X17
 | | Crystal structure of murine CK1d in complex with ADP | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Casein kinase I isoform delta, SULFATE ION | | Authors: | Kikuchi, M, Shinohara, Y, Ueda, H.R, Umehara, T. | | Deposit date: | 2017-01-25 | | Release date: | 2017-10-04 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Temperature-Sensitive Substrate and Product Binding Underlie Temperature-Compensated Phosphorylation in the Clock
Mol. Cell, 67, 2017
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5X18
 | | Crystal structure of Casein kinase I homolog 1 | | Descriptor: | Casein kinase I homolog 1, GLYCEROL, MALONIC ACID | | Authors: | Kikuchi, M, Shinohara, Y, Ueda, H.R, Umehara, T. | | Deposit date: | 2017-01-25 | | Release date: | 2017-10-04 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Temperature-Sensitive Substrate and Product Binding Underlie Temperature-Compensated Phosphorylation in the Clock
Mol. Cell, 67, 2017
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1ZR7
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6Z1H
 | | Ancestral glycosidase (family 1) | | Descriptor: | ANCESTRAL RECONSTRUCTED GLYCOSIDASE, GLYCEROL, ISOPROPYL ALCOHOL, ... | | Authors: | Gavira, J.A, Risso, V.A, Sanchez-Ruiz, J.M, Gamiz-Arco, G, Gutierrez-Rus, L, Ibarra-Molero, B, Hoshino, Y, Petrovic, D, Romero-Rivera, A, Seelig, B, Kamerlin, S.C.L, Gaucher, E.A. | | Deposit date: | 2020-05-13 | | Release date: | 2020-07-22 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Heme-binding enables allosteric modulation in an ancient TIM-barrel glycosidase.
Nat Commun, 12, 2021
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1IQP
 | | Crystal Structure of the Clamp Loader Small Subunit from Pyrococcus furiosus | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, RFCS | | Authors: | Oyama, T, Ishino, Y, Cann, I.K.O, Ishino, S, Morikawa, K. | | Deposit date: | 2001-07-24 | | Release date: | 2001-09-19 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Atomic Structure of the Clamp Loader Small Subunit from Pyrococcus furiosus
Mol.Cell, 8, 2001
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1IPI
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1IZ4
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1J23
 | | Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain | | Descriptor: | ATP-dependent RNA helicase, putative | | Authors: | Nishino, T, Komori, K, Ishino, Y, Morikawa, K. | | Deposit date: | 2002-12-25 | | Release date: | 2003-04-22 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.78 Å) | | Cite: | X-Ray and Biochemical Anatomy of an Archaeal XPF/Rad1/Mus81 Family Nuclease. Similarity between Its Endonuclease Domain and Restriction Enzymes
Structure, 11, 2003
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1J25
 | | Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Mn cocrystal | | Descriptor: | ATP-dependent RNA helicase, putative, MANGANESE (II) ION | | Authors: | Nishino, T, Komori, K, Ishino, Y, Morikawa, K. | | Deposit date: | 2002-12-25 | | Release date: | 2003-04-22 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.78 Å) | | Cite: | X-Ray and Biochemical Anatomy of an Archaeal XPF/Rad1/Mus81 Family Nuclease. Similarity between Its Endonuclease Domain and Restriction Enzymes
Structure, 11, 2003
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1J22
 | | Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, selenomet derivative | | Descriptor: | ATP-dependent RNA helicase, putative | | Authors: | Nishino, T, Komori, K, Ishino, Y, Morikawa, K. | | Deposit date: | 2002-12-25 | | Release date: | 2003-04-22 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | X-Ray and Biochemical Anatomy of an Archaeal XPF/Rad1/Mus81 Family Nuclease. Similarity between Its Endonuclease Domain and Restriction Enzymes
Structure, 11, 2003
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1ISQ
 | | Pyrococcus furiosus PCNA complexed with RFCL PIP-box peptide | | Descriptor: | Proliferating Cell Nuclear Antigen, replication factor C large subunit | | Authors: | Matsumiya, S, Ishino, S, Ishino, Y, Morikawa, K. | | Deposit date: | 2001-12-19 | | Release date: | 2002-10-23 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Physical interaction between proliferating cell nuclear antigen and
replication factor C from Pyrococcus furiosus
Genes Cells, 7, 2002
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1IZ5
 | | Pyrococcus furiosus PCNA mutant (Met73Leu, Asp143Ala, Asp147Ala): orthorhombic form | | Descriptor: | Proliferating cell nuclear antigen | | Authors: | Matsumiya, S, Ishino, S, Ishino, Y, Morikawa, K. | | Deposit date: | 2002-09-23 | | Release date: | 2003-04-01 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Intermolecular ion pairs maintain the toroidal structure of Pyrococcus furiosus PCNA
PROTEIN SCI., 12, 2003
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1J24
 | | Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal | | Descriptor: | ATP-dependent RNA helicase, putative, CALCIUM ION | | Authors: | Nishino, T, Komori, K, Ishino, Y, Morikawa, K. | | Deposit date: | 2002-12-25 | | Release date: | 2003-04-22 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.78 Å) | | Cite: | X-Ray and Biochemical Anatomy of an Archaeal XPF/Rad1/Mus81 Family Nuclease. Similarity between Its Endonuclease Domain and Restriction Enzymes
Structure, 11, 2003
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5CZC
 | | The structure of VinK | | Descriptor: | CALCIUM ION, GLYCEROL, Malonyl-CoA-[acyl-carrier-protein] transacylase | | Authors: | Miyanaga, A, Iwasawa, S, Shinohara, Y, Kudo, F, Eguchi, T. | | Deposit date: | 2015-07-31 | | Release date: | 2016-02-03 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structure-based analysis of the molecular interactions between acyltransferase and acyl carrier protein in vicenistatin biosynthesis.
Proc.Natl.Acad.Sci.USA, 113, 2016
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5CZD
 | | The complex structure of VinK with VinL | | Descriptor: | 1,1'-ethane-1,2-diyldipyrrolidine-2,5-dione, 4'-PHOSPHOPANTETHEINE, Acyl-carrier-protein, ... | | Authors: | Miyanaga, A, Iwasawa, S, Shinohara, Y, Kudo, F, Eguchi, T. | | Deposit date: | 2015-07-31 | | Release date: | 2016-02-03 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.34 Å) | | Cite: | Structure-based analysis of the molecular interactions between acyltransferase and acyl carrier protein in vicenistatin biosynthesis.
Proc.Natl.Acad.Sci.USA, 113, 2016
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7COY
 | | Structure of the far-red light utilizing photosystem I of Acaryochloris marina | | Descriptor: | 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE, CHLOROPHYLL D, ... | | Authors: | Kawakami, K, Yonekura, K, Hamaguchi, T, Kashino, Y, Shinzawa-Itoh, K, Inoue-Kashino, N, Itoh, S, Ifuku, K, Yamashita, E. | | Deposit date: | 2020-08-05 | | Release date: | 2021-03-31 | | Last modified: | 2021-05-05 | | Method: | ELECTRON MICROSCOPY (2.5 Å) | | Cite: | Structure of the far-red light utilizing photosystem I of Acaryochloris marina.
Nat Commun, 12, 2021
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6JI2
 | | Crystal structure of archaeal ribosomal protein aP1, aPelota, and GTP-bound aEF1A complex | | Descriptor: | Archaeal ribosomal stalk protein aP1, Elongation factor 1-alpha, GUANOSINE-5'-TRIPHOSPHATE, ... | | Authors: | Maruyama, K, Imai, H, Kawamura, M, Ishino, S, Ishino, Y, Ito, K, Uchiumi, T. | | Deposit date: | 2019-02-20 | | Release date: | 2019-11-13 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Switch of the interactions between the ribosomal stalk and EF1A in the GTP- and GDP-bound conformations.
Sci Rep, 9, 2019
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6KNC
 | | PolD-PCNA-DNA (form B) | | Descriptor: | DNA polymerase D DP2 (DNA polymerase II large) subunit, DNA polymerase II small subunit, DNA polymerase sliding clamp 1, ... | | Authors: | Mayanagi, K, Oki, K, Miyazaki, N, Ishino, S, Yamagami, T, Iwasaki, K, Kohda, D, Morikawa, K, Shirai, T, Ishino, Y. | | Deposit date: | 2019-08-05 | | Release date: | 2020-08-05 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (9.3 Å) | | Cite: | Two conformations of DNA polymerase D-PCNA-DNA, an archaeal replisome complex, revealed by cryo-electron microscopy.
Bmc Biol., 18, 2020
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6KNB
 | | PolD-PCNA-DNA (form A) | | Descriptor: | DNA polymerase D DP2 (DNA polymerase II large) subunit, DNA polymerase II small subunit, DNA polymerase sliding clamp 1, ... | | Authors: | Mayanagi, K, Oki, K, Miyazaki, N, Ishino, S, Yamagami, T, Iwasaki, K, Kohda, D, Morikawa, K, Shirai, T, Ishino, Y. | | Deposit date: | 2019-08-05 | | Release date: | 2020-08-05 | | Last modified: | 2021-02-17 | | Method: | ELECTRON MICROSCOPY (6.9 Å) | | Cite: | Two conformations of DNA polymerase D-PCNA-DNA, an archaeal replisome complex, revealed by cryo-electron microscopy.
Bmc Biol., 18, 2020
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7E15
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2CFM
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3ANW
 | | A protein complex essential initiation of DNA replication | | Descriptor: | Putative uncharacterized protein | | Authors: | Oyama, T, Shirai, T, Nagasawa, N, Ishino, Y, Morikawa, K. | | Deposit date: | 2010-09-10 | | Release date: | 2011-07-27 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.65 Å) | | Cite: | Architectures of archaeal GINS complexes, essential DNA replication initiation factors
Bmc Biol., 9, 2011
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3A2F
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7DD4
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