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6JI2
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BU of 6ji2 by Molmil
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
7E15
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BU of 7e15 by Molmil
Protein ternary complex working for DNA replication initiation
Descriptor: DNA polymerase II small subunit, Gins51, SsDNA-specific exonuclease
Authors:Oyama, T, Ishino, Y.
Deposit date:2021-01-30
Release date:2021-10-06
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:Family D DNA polymerase interacts with GINS to promote CMG-helicase in the archaeal replisome.
Nucleic Acids Res., 50, 2022
6KNC
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BU of 6knc by Molmil
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
6KNB
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BU of 6knb by Molmil
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
1IQP
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BU of 1iqp by Molmil
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
3ANW
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BU of 3anw by Molmil
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
1IZ4
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BU of 1iz4 by Molmil
Pyrococcus furiosus PCNA mutant (Met73Leu/Asp143Ala): tetragonal form
Descriptor: Proliferating cell nuclear antigen
Authors:Matsumiya, S, Ishino, S, Ishino, Y, Morikawa, K.
Deposit date:2002-09-21
Release date:2003-04-01
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2 Å)
Cite:Intermolecular ion pairs maintain the toroidal structure of Pyrococcus furiosus PCNA
PROTEIN SCI., 12, 2003
1ISQ
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BU of 1isq by Molmil
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:2023-10-25
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
1IZ5
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BU of 1iz5 by Molmil
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
2CFM
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BU of 2cfm by Molmil
ATP-DEPENDENT DNA LIGASE FROM PYROCOCCUS FURIOSUS
Descriptor: ADENOSINE MONOPHOSPHATE, MAGNESIUM ION, THERMOSTABLE DNA LIGASE
Authors:Nishida, H, Ishino, Y, Morikawa, K.
Deposit date:2006-02-22
Release date:2006-07-12
Last modified:2019-02-06
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:The Closed Structure of an Archaeal DNA Ligase from Pyrococcus Furiosus.
J.Mol.Biol., 360, 2006
1WP9
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BU of 1wp9 by Molmil
Crystal structure of Pyrococcus furiosus Hef helicase domain
Descriptor: ATP-dependent RNA helicase, putative, PHOSPHATE ION
Authors:Nishino, T, Komori, K, Tsuchiya, D, Ishino, Y, Morikawa, K.
Deposit date:2004-08-31
Release date:2005-02-01
Last modified:2021-11-10
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Crystal Structure and Functional Implications of Pyrococcus furiosus Hef Helicase Domain Involved in Branched DNA Processing
Structure, 13, 2005
1X2I
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BU of 1x2i by Molmil
Crystal Structure Of Archaeal Xpf/Mus81 Homolog, Hef From Pyrococcus Furiosus, Helix-hairpin-helix Domain
Descriptor: Hef helicase/nuclease
Authors:Nishino, T, Komori, K, Ishino, Y, Morikawa, K.
Deposit date:2005-04-24
Release date:2005-09-13
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Structural and Functional Analyses of an Archaeal XPF/Rad1/Mus81 Nuclease: Asymmetric DNA Binding and Cleavage Mechanisms
STRUCTURE, 13, 2005
5GKI
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BU of 5gki by Molmil
Structure of EndoMS-dsDNA3 complex
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*GP*CP*CP*TP*AP*GP*GP*TP*CP*CP*CP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*GP*GP*GP*GP*CP*CP*TP*AP*GP*GP*C)-3'), ...
Authors:Nakae, S, Hijikata, A, Tsuji, T, Yonezawa, K, Kouyama, K, Mayanagi, K, Ishino, S, Ishino, Y, Shirai, T.
Deposit date:2016-07-04
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24, 2016
5GKG
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BU of 5gkg by Molmil
Structure of EndoMS-dsDNA1'' complex
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*CP*GP*CP*TP*AP*CP*AP*GP*GP*TP*CP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*GP*AP*CP*GP*TP*GP*TP*AP*GP*CP*G)-3'), ...
Authors:Nakae, S, Hijikata, A, Tsuji, T, Yonezawa, K, Kouyama, K, Mayanagi, K, Ishino, S, Ishino, Y, Shirai, T.
Deposit date:2016-07-04
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24, 2016
5GKJ
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BU of 5gkj by Molmil
Structure of EndoMS in apo form
Descriptor: Endonuclease EndoMS
Authors:Nakae, S, Hijikata, A, Tsuji, T, Yonezawa, K, Kouyama, K, Mayanagi, K, Ishino, S, Ishino, Y, Shirai, T.
Deposit date:2016-07-04
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24, 2016
5GKF
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BU of 5gkf by Molmil
Structure of EndoMS-dsDNA1' complex
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*CP*GP*CP*TP*AP*CP*AP*TP*GP*TP*CP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*GP*AP*CP*TP*TP*GP*TP*AP*GP*CP*G)-3'), ...
Authors:Nakae, S, Hijikata, A, Tsuji, T, Yonezawa, K, Kouyama, K, Mayanagi, K, Ishino, S, Ishino, Y, Shirai, T.
Deposit date:2016-07-04
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24, 2016
5GKE
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BU of 5gke by Molmil
Structure of EndoMS-dsDNA1 complex
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*CP*GP*CP*TP*AP*CP*AP*TP*GP*TP*CP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*GP*AP*CP*GP*TP*GP*TP*AP*GP*CP*G)-3'), ...
Authors:Nakae, S, Hijikata, A, Tsuji, T, Yonezawa, K, Kouyama, K, Mayanagi, K, Ishino, S, Ishino, Y, Shirai, T.
Deposit date:2016-07-04
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24, 2016
5GKH
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BU of 5gkh by Molmil
Structure of EndoMS-dsDNA2 complex
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*AP*CP*GP*GP*CP*AP*CP*TP*TP*GP*GP*CP*AP*CP*G)-3'), DNA (5'-D(*CP*GP*TP*GP*CP*CP*AP*GP*GP*TP*GP*CP*CP*GP*T)-3'), ...
Authors:Nakae, S, Hijikata, A, Tsuji, T, Yonezawa, K, Kouyama, K, Mayanagi, K, Ishino, S, Ishino, Y, Shirai, T.
Deposit date:2016-07-04
Release date:2016-11-02
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24, 2016
1DQ3
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BU of 1dq3 by Molmil
CRYSTAL STRUCTURE OF AN ARCHAEAL INTEIN-ENCODED HOMING ENDONUCLEASE PI-PFUI
Descriptor: ENDONUCLEASE, ZINC ION
Authors:Ichiyanagi, K, Ishino, Y, Morikawa, K.
Deposit date:1999-12-30
Release date:2000-07-05
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of an archaeal intein-encoded homing endonuclease PI-PfuI.
J.Mol.Biol., 300, 2000
1GEF
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BU of 1gef by Molmil
Crystal structure of the archaeal holliday junction resolvase HJC
Descriptor: HOLLIDAY JUNCTION RESOLVASE, SULFATE ION
Authors:Nishino, T, Komori, K, Tsuchiya, D, Ishino, Y, Morikawa, K.
Deposit date:2000-11-08
Release date:2001-03-21
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of the archaeal holliday junction resolvase Hjc and implications for DNA recognition.
Structure, 9, 2001
1GE8
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BU of 1ge8 by Molmil
PROLIFERATING CELL NUCLEAR ANTIGEN (PCNA) HOMOLOG FROM PYROCOCCUS FURIOSUS
Descriptor: PROLIFERATION CELL NUCLEAR ANTIGEN
Authors:Matsumiya, S, Ishino, Y, Morikawa, K.
Deposit date:2000-10-18
Release date:2001-01-24
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of an archaeal DNA sliding clamp: proliferating cell nuclear antigen from Pyrococcus furiosus.
Protein Sci., 10, 2001
3A2F
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BU of 3a2f by Molmil
Crystal Structure of Pyrococcus furiosus DNA polymerase/PCNA monomer mutant complex
Descriptor: DNA polymerase, DNA polymerase sliding clamp
Authors:Nishida, H, Ishino, Y, Morikawa, K.
Deposit date:2009-05-15
Release date:2009-11-03
Last modified:2021-11-10
Method:X-RAY DIFFRACTION (2.67 Å)
Cite:Structural determinant for switching between the polymerase and exonuclease modes in the PCNA-replicative DNA polymerase complex
To be Published
1IPI
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BU of 1ipi by Molmil
CRYSTAL STRUCTURE OF THE ARCHAEAL HOLLIDAY JUNCTION RESOLVASE HJC FROM PYROCOCCUS FURIOSUS FORM II
Descriptor: HOLLIDAY JUNCTION RESOLVASE
Authors:Nishino, T, Komori, K, Ishino, Y, Morikawa, K.
Deposit date:2001-05-15
Release date:2001-11-28
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.16 Å)
Cite:Dissection of the regional roles of the archaeal Holliday junction resolvase Hjc by structural and mutational analyses.
J.Biol.Chem., 276, 2001
2ZJ5
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BU of 2zj5 by Molmil
Archaeal DNA helicase Hjm complexed with ADP in form 1
Descriptor: ADENOSINE-5'-DIPHOSPHATE, Putative ski2-type helicase, SULFATE ION
Authors:Oyama, T, Oka, H, Fujikane, R, Ishino, Y, Morikawa, K.
Deposit date:2008-02-29
Release date:2009-02-10
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Atomic structures and functional implications of the archaeal RecQ-like helicase Hjm
Bmc Struct.Biol., 9, 2009
2ZJA
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BU of 2zja by Molmil
Archaeal DNA helicase Hjm complexed with AMPPCP in form 2
Descriptor: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER, Putative ski2-type helicase
Authors:Oyama, T, Oka, H, Fujikane, R, Ishino, Y, Morikawa, K.
Deposit date:2008-02-29
Release date:2009-02-10
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Atomic structures and functional implications of the archaeal RecQ-like helicase Hjm
Bmc Struct.Biol., 9, 2009

 

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