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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
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
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
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
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
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
5ZB8
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BU of 5zb8 by Molmil
Crystal structure of the novel lesion-specific endonuclease PfuEndoQ from Pyrococcus furiosus
Descriptor: PfuEndoQ, SAMARIUM (III) ION, ZINC ION
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2018-02-10
Release date:2018-04-04
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of the novel lesion-specific endonuclease PfuEndoQ from Pyrococcus furiosus.
Nucleic Acids Res., 46, 2018
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
4YOW
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BU of 4yow by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dC
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*CP*CP*CP*CP*CP*CP*C)-3'
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOX
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BU of 4yox by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dT
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*TP*TP*TP*TP*TP*TP*T)-3'
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOU
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BU of 4you by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 at 2.20A resolution.
Descriptor: 3-5 exonuclease PhoExo I, MAGNESIUM ION
Authors:Miyazono, K, Tsutsumi, K, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOR
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BU of 4yor by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 at 1.52A resolution.
Descriptor: 3-5 exonuclease PhoExo I, MAGNESIUM ION
Authors:Miyazono, K, Tsutsumi, K, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.52 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOY
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BU of 4yoy by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dT and Mg2+ ion
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*TP*TP*TP*TP*TP*TP*T)-3', MAGNESIUM ION
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOV
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BU of 4yov by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 in complex with poly-dA
Descriptor: 3-5 exonuclease PhoExo I, 5'-D(*AP*AP*AP*AP*AP*AP*A)-3'
Authors:Miyazono, K, Ito, T, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
4YOT
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BU of 4yot by Molmil
Crystal structure of a trimeric exonuclease PhoExo I from Pyrococcus horikoshii OT3 at 2.15A resolution
Descriptor: 3-5 exonuclease PhoExo I, MAGNESIUM ION
Authors:Miyazono, K, Tsutsumi, K, Tanokura, M.
Deposit date:2015-03-12
Release date:2015-07-15
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Structural basis for substrate recognition and processive cleavage mechanisms of the trimeric exonuclease PhoExo I
Nucleic Acids Res., 43, 2015
5GHS
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BU of 5ghs by Molmil
DNA replication protein
Descriptor: Putative uncharacterized protein, SULFATE ION, SsDNA-specific exonuclease
Authors:Oyama, T.
Deposit date:2016-06-20
Release date:2016-10-12
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.591 Å)
Cite:Atomic structure of an archaeal GAN suggests its dual roles as an exonuclease in DNA repair and a CMG component in DNA replication.
Nucleic Acids Res., 44, 2016
5GHR
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BU of 5ghr by Molmil
DNA replication protein
Descriptor: Putative uncharacterized protein, SULFATE ION, SsDNA-specific exonuclease
Authors:Oyama, T.
Deposit date:2016-06-20
Release date:2016-10-12
Last modified:2017-12-06
Method:X-RAY DIFFRACTION (2.509 Å)
Cite:Atomic structure of an archaeal GAN suggests its dual roles as an exonuclease in DNA repair and a CMG component in DNA replication.
Nucleic Acids Res., 44, 2016

 

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