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1GEH
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BU of 1geh by Molmil
CRYSTAL STRUCTURE OF ARCHAEAL RUBISCO (RIBULOSE 1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE)
Descriptor: RIBULOSE-1,5-BISPHOSPHATE CARBOXYLASE/OXYGENASE, SULFATE ION
Authors:Kitano, K, Maeda, N, Fukui, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2000-11-13
Release date:2001-12-19
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal Structure of a Novel-Type Archaeal Rubisco with Pentagonal Symmetry
Structure, 9, 2001
6JBC
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BU of 6jbc by Molmil
Phosphotransferase related to CoA biosynthesis pathway
Descriptor: 1,2-ETHANEDIOL, CALCIUM ION, GLYCEROL, ...
Authors:Kita, A, Kishimoto, A, Shimosaka, T, Tomita, H, Yokooji, Y, Imanaka, T, Atomi, H, Miki, K.
Deposit date:2019-01-25
Release date:2020-01-29
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal structure of pantoate kinase from Thermococcus kodakarensis.
Proteins, 88, 2020
6JBD
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BU of 6jbd by Molmil
Phosphotransferase-ATP complex related to CoA biosynthesis pathway
Descriptor: 1,2-ETHANEDIOL, ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, ...
Authors:Kita, A, Kishimoto, A, Shimosaka, T, Tomita, H, Yokooji, Y, Imanaka, T, Atomi, H, Miki, K.
Deposit date:2019-01-25
Release date:2020-01-29
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of pantoate kinase from Thermococcus kodakarensis.
Proteins, 88, 2020
3KDO
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BU of 3kdo by Molmil
Crystal structure of Type III Rubisco SP6 mutant complexed with 2-CABP
Descriptor: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, Ribulose bisphosphate carboxylase
Authors:Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-10-23
Release date:2010-10-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.36 Å)
Cite:Structure-based catalytic optimization of a type III Rubisco from a hyperthermophile
J.Biol.Chem., 285, 2010
3KDN
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BU of 3kdn by Molmil
Crystal structure of Type III Rubisco SP4 mutant complexed with 2-CABP
Descriptor: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, Ribulose bisphosphate carboxylase
Authors:Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-10-23
Release date:2010-10-06
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.09 Å)
Cite:Structure-based catalytic optimization of a type III Rubisco from a hyperthermophile
J.Biol.Chem., 285, 2010
3A44
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BU of 3a44 by Molmil
Crystal structure of HypA in the dimeric form
Descriptor: Hydrogenase nickel incorporation protein hypA, ZINC ION
Authors:Watanabe, S, Arai, T, Matsumi, R, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-06-30
Release date:2009-10-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (3.31 Å)
Cite:Crystal structure of HypA, a nickel-binding metallochaperone for [NiFe] hydrogenase maturation.
J.Mol.Biol., 394, 2009
3A9C
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BU of 3a9c by Molmil
Crystal structure of ribose-1,5-bisphosphate isomerase from Thermococcus kodakaraensis KOD1 in complex with ribulose-1,5-bisphosphate
Descriptor: DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, RIBULOSE-1,5-DIPHOSPHATE, ...
Authors:Nakamura, A, Fujihashi, M, Nishiba, Y, Yoshida, S, Yano, A, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-10-22
Release date:2010-11-03
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1
J.Biol.Chem., 287, 2012
4GA6
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BU of 4ga6 by Molmil
Crystal structure of AMP phosphorylase C-terminal deletion mutant in complex with substrates
Descriptor: ADENOSINE MONOPHOSPHATE, Putative thymidine phosphorylase, SULFATE ION
Authors:Nishitani, Y, Aono, R, Nakamura, A, Sato, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2012-07-25
Release date:2013-05-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:Structure analysis of archaeal AMP phosphorylase reveals two unique modes of dimerization
J.Mol.Biol., 425, 2013
4GA4
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BU of 4ga4 by Molmil
Crystal structure of AMP phosphorylase N-terminal deletion mutant
Descriptor: PHOSPHATE ION, Putative thymidine phosphorylase
Authors:Nishitani, Y, Aono, R, Nakamura, A, Sato, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2012-07-25
Release date:2013-05-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.51 Å)
Cite:Structure analysis of archaeal AMP phosphorylase reveals two unique modes of dimerization
J.Mol.Biol., 425, 2013
4G9I
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BU of 4g9i by Molmil
Crystal structure of T.kodakarensis HypF
Descriptor: Hydrogenase maturation protein HypF, ZINC ION
Authors:Tominaga, T, Watanabe, S, Matsumi, R, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2012-07-24
Release date:2012-10-24
Method:X-RAY DIFFRACTION (4.5 Å)
Cite:Structure of the [NiFe]-hydrogenase maturation protein HypF from Thermococcus kodakarensis KOD1.
Acta Crystallogr.,Sect.F, 68, 2012
4GA5
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BU of 4ga5 by Molmil
Crystal structure of AMP phosphorylase C-terminal deletion mutant in the apo-form
Descriptor: Putative thymidine phosphorylase
Authors:Nishitani, Y, Aono, R, Nakamura, A, Sato, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2012-07-25
Release date:2013-05-15
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.25 Å)
Cite:Structure analysis of archaeal AMP phosphorylase reveals two unique modes of dimerization
J.Mol.Biol., 425, 2013
2Z1E
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BU of 2z1e by Molmil
Crystal structure of HypE from Thermococcus kodakaraensis (outward form)
Descriptor: Hydrogenase expression/formation protein HypE
Authors:Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2007-05-08
Release date:2007-07-17
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling
Mol.Cell, 27, 2007
2Z1C
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BU of 2z1c by Molmil
Crystal structure of HypC from Thermococcus kodakaraensis KOD1
Descriptor: GLYCEROL, Hydrogenase expression/formation protein HypC, TETRAETHYLENE GLYCOL
Authors:Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2007-05-08
Release date:2007-07-17
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling
Mol.Cell, 27, 2007
2Z1F
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BU of 2z1f by Molmil
Crystal structure of HypE from Thermococcus kodakaraensis (inward form)
Descriptor: Hydrogenase expression/formation protein HypE
Authors:Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2007-05-08
Release date:2007-07-17
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling
Mol.Cell, 27, 2007
2Z1D
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BU of 2z1d by Molmil
Crystal structure of [NiFe] hydrogenase maturation protein, HypD from Thermococcus kodakaraensis
Descriptor: Hydrogenase expression/formation protein hypD, IRON/SULFUR CLUSTER
Authors:Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2007-05-08
Release date:2007-07-17
Last modified:2014-11-12
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling
Mol.Cell, 27, 2007
3A11
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BU of 3a11 by Molmil
Crystal structure of ribose-1,5-bisphosphate isomerase from Thermococcus kodakaraensis KOD1
Descriptor: DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, Translation initiation factor eIF-2B, ...
Authors:Nakamura, A, Fujihashi, M, Nishiba, Y, Yoshida, S, Yano, A, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-03-25
Release date:2010-03-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1
J.Biol.Chem., 287, 2012
3A12
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BU of 3a12 by Molmil
Crystal structure of Type III Rubisco complexed with 2-CABP
Descriptor: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, Ribulose bisphosphate carboxylase
Authors:Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-03-25
Release date:2010-04-07
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structure-based catalytic optimization of a type III Rubisco from a hyperthermophile
J.Biol.Chem., 285, 2010
3A13
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BU of 3a13 by Molmil
Crystal structure of Type III Rubisco SP4 mutant complexed with 2-CABP and activated with Ca
Descriptor: 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, CALCIUM ION, MAGNESIUM ION, ...
Authors:Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2009-03-25
Release date:2010-04-07
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.34 Å)
Cite:Structure-based optimization of a Type III Rubisco from a hyperthermophile
To be Published
3WDL
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BU of 3wdl by Molmil
Crystal structure of 4-phosphopantoate-beta-alanine ligase complexed with ATP
Descriptor: 4-phosphopantoate--beta-alanine ligase, ADENOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION
Authors:Kishimoto, A, Kita, A, Ishibashi, T, Tomita, H, Yokooji, Y, Imanaka, T, Atomi, H, Miki, K.
Deposit date:2013-06-19
Release date:2014-04-02
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of phosphopantothenate synthetase from Thermococcus kodakarensis
Proteins, 82, 2014
3WDK
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BU of 3wdk by Molmil
Crystal structure of 4-phosphopantoate-beta-alanine ligase complexed with reaction intermediate
Descriptor: 4-phosphopantoate--beta-alanine ligase, 5'-O-[(S)-hydroxy{[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]oxy}phosphoryl]adenosine, CITRATE ANION
Authors:Kishimoto, A, Kita, A, Ishibashi, T, Tomita, H, Yokooji, Y, Imanaka, T, Atomi, H, Miki, K.
Deposit date:2013-06-19
Release date:2014-04-02
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal structure of phosphopantothenate synthetase from Thermococcus kodakarensis
Proteins, 82, 2014
3WDM
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BU of 3wdm by Molmil
Crystal structure of 4-phosphopantoate-beta-alanine ligase from Thermococcus kodakarensis
Descriptor: 4-phosphopantoate--beta-alanine ligase, ADENOSINE
Authors:Kishimoto, A, Kita, A, Ishibashi, T, Tomita, H, Yokooji, Y, Imanaka, T, Atomi, H, Miki, K.
Deposit date:2013-06-19
Release date:2014-04-02
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of phosphopantothenate synthetase from Thermococcus kodakarensis
Proteins, 82, 2014
3VM6
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BU of 3vm6 by Molmil
Crystal structure of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1 in complex with alpha-D-ribose-1,5-bisphosphate
Descriptor: 1,5-di-O-phosphono-alpha-D-ribofuranose, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ...
Authors:Nakamura, A, Fujihashi, M, Aono, R, Sato, T, Nishiba, Y, Yoshida, S, Yano, A, Atomi, H, Imanaka, T, Miki, K.
Deposit date:2011-12-08
Release date:2012-04-25
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1
J.Biol.Chem., 287, 2012
3ZWQ
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BU of 3zwq by Molmil
HYPERTHERMOPHILIC ESTERASE FROM THE ARCHEON PYROBACULUM CALIDIFONTIS
Descriptor: ALPHA/BETA HYDROLASE FOLD-3 DOMAIN PROTEIN
Authors:Palm, G.J, Bogdanovic, X, Hinrichs, W.
Deposit date:2011-08-02
Release date:2011-08-17
Last modified:2023-12-20
Method:X-RAY DIFFRACTION (2 Å)
Cite:The Crystal Structure of an Esterase from the Hyperthermophilic Microorganism Pyrobaculum Calidifontis Va1 Supports Explanation of its Enantioselectivity.
Appl.Microbiol.Biotechnol., 91, 2011
7E4L
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BU of 7e4l by Molmil
Conversion of pyrophosphate-dependent myo-inositol-1 kinase into myo-inositol-3 kinase by N78L/S89L mutation
Descriptor: MAGNESIUM ION, METHYLENEDIPHOSPHONIC ACID, PfkB domain-containing protein
Authors:Tashiro, R, Miki, K, Fujihashi, M.
Deposit date:2021-02-14
Release date:2021-05-05
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Altering the Phosphorylation Position of Pyrophosphate-Dependent myo -Inositol-1-Kinase Based on Its Crystal Structure.
Acs Chem.Biol., 16, 2021
4XF6
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BU of 4xf6 by Molmil
myo-inositol 3-kinase bound with its products (ADP and 1D-myo-inositol 3-phosphate)
Descriptor: 1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE, 1,2-ETHANEDIOL, ADENOSINE-5'-DIPHOSPHATE, ...
Authors:Nagata, R, Fujihashi, M, Miki, K.
Deposit date:2014-12-26
Release date:2015-06-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.08 Å)
Cite:Crystal Structure and Product Analysis of an Archaeal myo-Inositol Kinase Reveal Substrate Recognition Mode and 3-OH Phosphorylation
Biochemistry, 54, 2015

 

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