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Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH in the steady stage of reaction
Descriptor:	Glutamate dehydrogenase, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Oide, M, Nakasako, M.
Deposit date:	2023-12-10
Release date:	2023-12-27
Last modified:	2024-06-19
Method:	ELECTRON MICROSCOPY (2.87 Å)
Cite:	CryoEM-sampling of metastable conformations appearing in cofactor-ligand association and catalysis of glutamate dehydrogenase. Sci Rep, 14, 2024

8XD3

Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus incorporating NADP and GLU in the steady stage of reaction
Descriptor:	GAMMA-L-GLUTAMIC ACID, Glutamate dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Oide, M, Nakasako, M.
Deposit date:	2023-12-10
Release date:	2023-12-27
Last modified:	2024-06-19
Method:	ELECTRON MICROSCOPY (2.87 Å)
Cite:	CryoEM-sampling of metastable conformations appearing in cofactor-ligand association and catalysis of glutamate dehydrogenase. Sci Rep, 14, 2024

8XCZ

Cryo-EM structure of glutamate dehydrogenase from thermococcus profundus incorporating NADP and GLU in the steady stage of reaction
Descriptor:	GAMMA-L-GLUTAMIC ACID, Glutamate dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Oide, M, Nakasako, M.
Deposit date:	2023-12-10
Release date:	2023-12-27
Last modified:	2024-06-19
Method:	ELECTRON MICROSCOPY (2.83 Å)
Cite:	CryoEM-sampling of metastable conformations appearing in cofactor-ligand association and catalysis of glutamate dehydrogenase. Sci Rep, 14, 2024

8ZNG

Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus in complex with NADPH and AKG in the steady stage of reaction
Descriptor:	2-OXOGLUTARIC ACID, Glutamate dehydrogenase, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Nakasako, M.
Deposit date:	2024-05-26
Release date:	2024-06-12
Method:	ELECTRON MICROSCOPY (2.5 Å)
Cite:	Mechanism for drastic reduction in catalytic activity of Trp89Phe-mutated glutamate dehydrogenase revealed by crystal structure and cryoEM-sampling of metastable conformation in action To Be Published

8ZNE

Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus in complex with NADP and GLU in the steady stage of reaction
Descriptor:	GLUTAMIC ACID, Glutamate dehydrogenase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Nakasako, M.
Deposit date:	2024-05-26
Release date:	2024-06-26
Method:	ELECTRON MICROSCOPY (2.64 Å)
Cite:	Mechanism for drastic reduction in catalytic activity of Trp89Phe-mutated glutamate dehydrogenase revealed by cryoEM-sampling metastable conformation in action To Be Published

8ZNB

Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH in the steady stage of reaction
Descriptor:	Glutamate dehydrogenase, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Nakasako, M.
Deposit date:	2024-05-26
Release date:	2024-06-12
Method:	ELECTRON MICROSCOPY (2.53 Å)
Cite:	Mechanism for drastic reduction in catalytic activity of Trp89Phe-mutated glutamate dehydrogenase revealed by crystal structure and cryoEM-sampling of metastable conformation in action To Be Published

8ZNC

Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH, AKG in the steady stage of reaction
Descriptor:	2-OXOGLUTARIC ACID, AMMONIUM ION, Glutamate dehydrogenase, ...
Authors:	Wakabayashi, T, Nakasako, M.
Deposit date:	2024-05-26
Release date:	2024-06-12
Method:	ELECTRON MICROSCOPY (2.41 Å)
Cite:	Mechanism for drastic reduction in catalytic activity of Trp89Phe-mutated glutamate dehydrogenase revealed by crystal structure and cryoEM-sampling of metastable conformation in action To Be Published

8ZND

Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH and a substrate in the steady stage of reaction
Descriptor:	Glutamate dehydrogenase, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:	Wakabayashi, T, Nakasako, M.
Deposit date:	2024-05-26
Release date:	2024-06-12
Method:	ELECTRON MICROSCOPY (2.53 Å)
Cite:	Mechanism for drastic reduction in catalytic activity of Trp89Phe-mutated glutamate dehydrogenase revealed by crystal structure and cryoEM-sampling of metastable conformation in action To Be Published

1IWZ

Crystal Structure Analysis of Human lysozyme at 178K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.48 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

1IWW

Crystal Structure Analysis of Human lysozyme at 152K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.4 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

1IWU

Crystal Structure Analysis of Human lysozyme at 127K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.4 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

1IWY

Crystal Structure Analysis of Human lysozyme at 170K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.4 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

1IWX

Crystal Structure Analysis of Human lysozyme at 161K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.4 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

1IWT

Crystal Structure Analysis of Human lysozyme at 113K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.4 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

1IWV

Crystal Structure Analysis of Human lysozyme at 147K.
Descriptor:	CHLORIDE ION, LYSOZYME C
Authors:	Joti, Y, Nakasako, M, Kidera, A, Go, N.
Deposit date:	2002-06-03
Release date:	2002-09-04
Last modified:	2023-12-27
Method:	X-RAY DIFFRACTION (1.4 Å)
Cite:	Nonlinear temperature dependence of the crystal structure of lysozyme: correlation between coordinate shifts and thermal factors. Acta Crystallogr.,Sect.D, 58, 2002

2KP1

Solution structure of the a' domain of thermophilic fungal protein disulfide isomerase
Descriptor:	Protein disulfide-isomerase
Authors:	Kato, K, Yamaguchi, Y, Serve, O.
Deposit date:	2009-10-06
Release date:	2009-10-27
Last modified:	2024-05-29
Method:	SOLUTION NMR
Cite:	Redox-Dependent Domain Rearrangement of Protein Disulfide Isomerase Coupled with Exposure of Its Substrate-Binding Hydrophobic Surface J.Mol.Biol., 2009

2KP2

Solution structure of the b' domain of thermophilic fungal protein disulfide isomerase
Descriptor:	Protein disulfide-isomerase
Authors:	Kato, K, Yamaguchi, Y, Serve, O.
Deposit date:	2009-10-06
Release date:	2009-10-27
Last modified:	2024-05-29
Method:	SOLUTION NMR
Cite:	Redox-Dependent Domain Rearrangement of Protein Disulfide Isomerase Coupled with Exposure of Its Substrate-Binding Hydrophobic Surface J.Mol.Biol., 2009

1QM8

Structure of Bacteriorhodopsin at 100 K
Descriptor:	2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, 3-PHOSPHORYL-[1,2-DI-PHYTANYL]GLYCEROL, ...
Authors:	Takeda, K, Matsui, Y, Sato, H, Hino, T, Kanamori, E, Okumura, H, Yamane, T, Kamiya, N, Kouyama, T.
Deposit date:	1999-09-22
Release date:	2000-08-16
Last modified:	2023-12-13
Method:	X-RAY DIFFRACTION (2.5 Å)
Cite:	A Novel Three-Dimensional Crystal of Bacteriorhodopsin Obtained by Successive Fusion of the Vesicular Assemblies. J.Mol.Biol., 283, 1998

3TLM

Crystal Structure of Endoplasmic Reticulum Ca2+-ATPase (SERCA) From Bovine Muscle
Descriptor:	CALCIUM ION, MAGNESIUM ION, PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER, ...
Authors:	Sacchetto, R, Bertipaglia, I, Giannetti, S, Cendron, L, Mascarello, F, Damiani, E, Carafoli, E, Zanotti, G.
Deposit date:	2011-08-30
Release date:	2012-03-21
Last modified:	2023-09-13
Method:	X-RAY DIFFRACTION (2.95 Å)
Cite:	Crystal structure of sarcoplasmic reticulum Ca(2+)-ATPase (SERCA) from bovine muscle. J.Struct.Biol., 178, 2012

1XAC

CHIMERA ISOPROPYLMALATE DEHYDROGENASE BETWEEN BACILLUS SUBTILIS (M) AND THERMUS THERMOPHILUS (T) FROM N-TERMINAL: 20% T MIDDLE 20% M RESIDUAL 60% T, MUTATED AT S82R. LOW TEMPERATURE (100K) STRUCTURE.
Descriptor:	3-ISOPROPYLMALATE DEHYDROGENASE 2T2M6T S82R
Authors:	Nagata, C, Moriyama, H, Tanaka, N.
Deposit date:	1995-11-09
Release date:	1996-04-03
Last modified:	2024-02-14
Method:	X-RAY DIFFRACTION (2.1 Å)
Cite:	Cryocrystallography of 3-Isopropylmalate dehydrogenase from Thermus thermophilus and its chimeric enzyme. Acta Crystallogr.,Sect.D, 52, 1996

1XAD

CHIMERA ISOPROPYLMALATE DEHYDROGENASE BETWEEN BACILLUS SUBTILIS (M) AND THERMUS THERMOPHILUS (T) FROM N-TERMINAL: 20% T MIDDLE 20% M RESIDUAL 60% T, MUTATED AT S82R. LOW TEMPERATURE (150K) STRUCTURE.
Descriptor:	3-ISOPROPYLMALATE DEHYDROGENASE 2T2M6T S82R
Authors:	Nagata, C, Moriyama, H, Tanaka, N.
Deposit date:	1995-11-09
Release date:	1996-04-03
Last modified:	2024-02-14
Method:	X-RAY DIFFRACTION (2.1 Å)
Cite:	Cryocrystallography of 3-Isopropylmalate dehydrogenase from Thermus thermophilus and its chimeric enzyme. Acta Crystallogr.,Sect.D, 52, 1996

1XAB

3-ISOPROPYLMALATE DEHYDROGENASE, LOW TEMPERATURE (150K) STRUCTURE
Descriptor:	3-ISOPROPYLMALATE DEHYDROGENASE
Authors:	Nagata, C, Moriyama, H, Tanaka, N.
Deposit date:	1995-11-09
Release date:	1996-04-03
Last modified:	2024-02-14
Method:	X-RAY DIFFRACTION (2.1 Å)
Cite:	Cryocrystallography of 3-Isopropylmalate dehydrogenase from Thermus thermophilus and its chimeric enzyme. Acta Crystallogr.,Sect.D, 52, 1996

1XAA

3-ISOPROPYLMALATE DEHYDROGENASE, LOW TEMPERATURE (100K) STRUCTURE
Descriptor:	3-ISOPROPYLMALATE DEHYDROGENASE
Authors:	Nagata, C, Moriyama, H, Tanaka, N.
Deposit date:	1995-11-09
Release date:	1996-04-03
Last modified:	2024-02-14
Method:	X-RAY DIFFRACTION (2.1 Å)
Cite:	Cryocrystallography of 3-Isopropylmalate dehydrogenase from Thermus thermophilus and its chimeric enzyme. Acta Crystallogr.,Sect.D, 52, 1996

8ZMU

GLUTAMATE DEHYDROGENASE (W89F-MUTANT) FROM THERMOCOCCUS PROFUNDUS IN THE UNLIGANDED STATE
Descriptor:	ACETIC ACID, GLYCEROL, Glutamate dehydrogenase, ...
Authors:	Wakabayashi, T, Matsui, Y, Masayoshi, M.
Deposit date:	2024-05-23
Release date:	2024-06-05
Method:	X-RAY DIFFRACTION (2.028 Å)
Cite:	Mechanism for drastic reduction in catalytic activity of Trp89Phe-mutated glutamate dehydrogenase revealed by cryoEM-sampling metastable conformation in action To Be Published

1KJU

Ca2+-ATPase in the E2 State
Descriptor:	Sarcoplasmic/endoplasmic reticulum calcium ATPase 1a
Authors:	Xu, C, Rice, W.J, He, W, Stokes, D.L.
Deposit date:	2001-12-05
Release date:	2001-12-19
Last modified:	2024-02-14
Method:	ELECTRON MICROSCOPY (6 Å)
Cite:	A structural model for the catalytic cycle of Ca(2+)-ATPase. J.Mol.Biol., 316, 2002

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