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grant_code:"jp21H01050"

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Current Database

  • EMDB [29]

Current status

  • REL [29]

Sample type

  • Ligand [29]
  • Protein [29]
  • Complex [28]
  • Cellular component [1]

Organism

  • Thermococcus profundus [29]

EM Method

  • Single-particle [29]

Resolution

  • ≥ 2Å and < 3Å [24]
  • ≥ 3Å and < 4Å [5]

Model molecular weight

  • 0-50 kDa [29]

Release Date

  • 2024 [5]
  • 2023 [24]

Author by name

  • Nakasako M [29]
  • Wakabayashi T [29]
  • Oide M [24]
  • Kato T [5]
  • Matsui Y [5]

Author by ORCID

  • Nakasako M [10]

Journal

  • SCI REP [19]
  • FEBS J [10]

Software

  • RELION [29]
  • CTFFIND [5]

Microscope

  • JEOL CRYO ARM 300 [29]

Electron Source

  • FIELD EMISSION GUN [29]

Film or detector model

  • GATAN K3 6K X 4K [29]

External links

  • AlphaFold DB [29]
  • ChEBI [29]
  • ChEMBL [29]
  • DrugBank [29]
  • Gene Ontology [29]
  • InterPro [29]
  • PDB [29]
  • PDBe-Kb [29]
  • Pfam [29]
  • UniProt [29]
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EMD-60269
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Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus in complex with NADP and GLU in the steady stage of reaction
Release date: June 26, 2024
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8zne
Q-score: 0.596

Wakabayashi T, Matsui Y, Nakasako M

FEBS J (2025) 292 pp. 2071-2094 [ DOI: doi:10.1111/febs.17415 Pubmed: 39891504 ]

EMD-60266
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3D View
Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH in the steady stage of reaction
Release date: June 12, 2024
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8znb
Q-score: 0.6

Wakabayashi T, Matsui Y, Nakasako M

FEBS J (2025) 292 pp. 2071-2094 [ DOI: doi:10.1111/febs.17415 Pubmed: 39891504 ]

EMD-60267
Download Map
3D View
Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH, AKG in the steady stage of reaction
Release date: June 12, 2024
Resolution: 2.41 Å
EM Method: Single-particle
Fitted PDBs: 8znc
Q-score: 0.625

Wakabayashi T, Matsui Y, Nakasako M

FEBS J (2025) 292 pp. 2071-2094 [ DOI: doi:10.1111/febs.17415 Pubmed: 39891504 ]

EMD-60268
Download Map
3D View
Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH and a substrate in the steady stage of reaction
Release date: June 12, 2024
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8znd
Q-score: 0.639

Wakabayashi T, Matsui Y, Nakasako M

FEBS J (2025) 292 pp. 2071-2094 [ DOI: doi:10.1111/febs.17415 Pubmed: 39891504 ]

EMD-60270
Download Map
3D View
Cryo-EM structure of W89F mutated Glutamate dehydrogenase from Thermococcus profundus in complex with NADPH and AKG in the steady stage of reaction
Release date: June 12, 2024
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8zng
Q-score: 0.646

Wakabayashi T, Matsui Y, Nakasako M

FEBS J (2025) 292 pp. 2071-2094 [ DOI: doi:10.1111/febs.17415 Pubmed: 39891504 ]

EMD-38249
Download Map
3D View
Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus incorporating NADPH in the initial stage of reaction
Release date: Dec. 27, 2023
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8xco
Q-score: 0.605

Wakabayashi T, Oide M, Nakasako M

Sci Rep (2024) 14 pp. 11165-11165 [ Pubmed: 38750092 DOI: doi:10.1038/s41598-024-61793-x ]

EMD-38250
Download Map
3D View
Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus incorporating NADP and GLU in the initial stage of reaction
Release date: Dec. 27, 2023
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8xcp
Q-score: 0.595

Wakabayashi T, Oide M, Nakasako M

Sci Rep (2024) 14 pp. 11165-11165 [ Pubmed: 38750092 DOI: doi:10.1038/s41598-024-61793-x ]

EMD-38251
Download Map
3D View
Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus incorporating NADP and GLU in the initial stage of reaction
Release date: Dec. 27, 2023
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8xcq
Q-score: 0.606

Wakabayashi T, Oide M, Nakasako M

Sci Rep (2024) 14 pp. 11165-11165 [ Pubmed: 38750092 DOI: doi:10.1038/s41598-024-61793-x ]

EMD-38252
Download Map
3D View
Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus in complex with NADP and GLU in the initial stage of reaction
Release date: Dec. 27, 2023
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8xcr
Q-score: 0.639

Wakabayashi T, Oide M, Nakasako M

Sci Rep (2024) 14 pp. 11165-11165 [ Pubmed: 38750092 DOI: doi:10.1038/s41598-024-61793-x ]

EMD-38253
Download Map
3D View
Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus in complex with NADPH, AKG and NH4 in the initial stage of reaction
Release date: Dec. 27, 2023
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 8xcs
Q-score: 0.638

Wakabayashi T, Oide M, Nakasako M

Sci Rep (2024) 14 pp. 11165-11165 [ Pubmed: 38750092 DOI: doi:10.1038/s41598-024-61793-x ]

Sort by: Download
Showing 1 - 10 of 29. Page 1 of 3
Display:
Statistics
×

Download











































Preview first 10
Download

Filter By

Current Database

  • EMDB [29]

Current status

  • REL [29]

Sample type

  • Ligand [29]
  • Protein [29]
  • Complex [28]
  • Cellular component [1]

Organism

  • Thermococcus profundus [29]

EM Method

  • Single-particle [29]

Resolution

  • ≥ 2Å and < 3Å [24]
  • ≥ 3Å and < 4Å [5]

Model molecular weight

  • 0-50 kDa [29]

Release Date

  • 2024 [5]
  • 2023 [24]

Author by name

  • Nakasako M [29]
  • Wakabayashi T [29]
  • Oide M [24]
  • Kato T [5]
  • Matsui Y [5]

Author by ORCID

  • Nakasako M [10]

Journal

  • SCI REP [19]
  • FEBS J [10]

Software

  • RELION [29]
  • CTFFIND [5]

Microscope

  • JEOL CRYO ARM 300 [29]

Electron Source

  • FIELD EMISSION GUN [29]

Film or detector model

  • GATAN K3 6K X 4K [29]

External links

  • AlphaFold DB [29]
  • ChEBI [29]
  • ChEMBL [29]
  • DrugBank [29]
  • Gene Ontology [29]
  • InterPro [29]
  • PDB [29]
  • PDBe-Kb [29]
  • Pfam [29]
  • UniProt [29]