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author:"Nakane T"

Filter By

Current Database

  • EMDB [35]
  • EMPIAR [10]

Current status

  • REL [45]

Sample type

  • Complex [29]
  • Protein [28]
  • Ligand [6]
  • Virus [6]

Organism

  • Homo sapiens [16]
  • Escherichia coli [12]
  • Severe acute respiratory syndrome coronavirus [6]
  • Saccharomyces cerevisiae [5]
  • Mus musculus [4]
  • Saccharomyces cerevisiae [3]
  • Escherichia coli [1]
  • Equus caballus [1]
  • Lama glama [1]

EM Method

  • Single-particle [30]
  • Subtomogram averaging [4]
  • Electron Crystallography [1]

Resolution

  • < 2Å [5]
  • ≥ 2Å and < 3Å [4]
  • ≥ 3Å and < 4Å [11]
  • ≥ 4Å and < 5Å [4]
  • ≥ 5Å and < 6Å [1]
  • ≥ 6Å and < 8Å [5]
  • ≥ 8Å and < 12Å [5]

Model molecular weight

  • 50-100 kDa [3]
  • 100-250 kDa [1]
  • 250-500 kDa [2]
  • 500-1000 kDa [6]

Release Date

  • 2023 [11]
  • 2021 [1]
  • 2020 [21]
  • 2019 [5]
  • 2018 [7]

Author by name

  • Nakane T [43]
  • Scheres SHW [18]
  • Kato T [12]
  • Zivanov J [12]
  • Iwasaki K [10]
  • Kawamura T [10]
  • Miyazaki N [10]
  • Mizobata T [10]
  • Mizohata E [10]
  • Standley DM [10]
  • Stapleton K [10]
  • Stapleton KM [10]
  • Takagi J [10]
  • Takatsuji T [10]
  • Allegretti M [8]
  • Aragon L [8]
  • Beck M [8]
  • Bravo S [8]
  • Briggs JAG [8]
  • Cawood C [8]
  • Cortese M [8]
  • Gutierrez-escribano P [8]
  • Haering CH [8]
  • Hassler M [8]
  • Ke Z [8]
  • Kschonsak M [8]
  • Lecomte L [8]
  • Lee BG [8]
  • Lowe J [8]
  • Merkel F [8]
  • O Reilly Fj [8]
  • Rappsilber J [8]
  • Sinn LR [8]
  • Zila V [8]
  • Lu JM [7]
  • Oton J [7]
  • Peukes J [7]
  • Qu K [7]
  • Xiong X [7]
  • Bartenschlager R [6]
  • Cerikan B [6]
  • Krausslich HG [6]
  • Lee B-G [6]
  • Mckeane L [6]
  • Neufeldt CJ [6]
  • Ishitani R [5]
  • Kimanius D [5]
  • Nureki O [5]
  • Shirouzu M [5]
  • Yokoyama T [5]
  • Aricescu AR [4]
  • Bischoff M [4]
  • Brown PMGE [4]
  • Chirgadze DY [4]
  • Forsberg BO [4]
  • Grigoras IT [4]
  • Hagen WJ [4]
  • Hardwick SW [4]
  • Karia D [4]
  • Keizer J [4]
  • Kotecha A [4]
  • Kusakizako T [4]
  • Lindahl E [4]
  • Malinauskaite L [4]
  • Malinauskas T [4]
  • Masiulis S [4]
  • Mccormack J [4]
  • Mcmullan G [4]
  • Miehling J [4]
  • Murshudov G [4]
  • Nishizawa T [4]
  • Pechnikova EV [4]
  • Scheres SH [4]
  • Sente A [4]
  • Tiemeijer P [4]
  • Yu L [4]
  • De Jong E [4]
  • Endou H [3]
  • Hagen WJH [3]
  • Jin C [3]
  • Kanai Y [3]
  • Lee Y [3]
  • Nagamori S [3]
  • Oda K [3]
  • Ohgaki R [3]
  • Okuda S [3]
  • Quan L [3]
  • Wiriyasermkul P [3]
  • Ishikawa I [2]
  • Kaneko T [2]
  • Kasuya G [2]
  • Makino F [2]
  • Motoki S [2]
  • Namba K [2]
  • Shimizu Y [2]
  • Terahara N [2]
  • Uchanski T [2]
  • Uchański T [2]
  • Yonekura K [2]
  • Aquila A [1]

Author by ORCID

  • Nakane T [21]
  • Scheres SHW [6]
  • Takagi J [6]
  • Iwasaki K [6]
  • Stapleton KM [6]
  • Miyazaki N [6]
  • Mizohata E [6]
  • Mizobata T [6]
  • Kato T [6]
  • Standley DM [6]
  • Bartenschlager R [4]
  • Rappsilber J [4]
  • Cawood C [4]
  • Haering CH [4]
  • Peukes J [4]
  • Bravo S [4]
  • O'reilly FJ [4]
  • Lee BG [4]
  • Hassler M [4]
  • Gutierrez-escribano P [4]
  • Lecomte L [4]
  • Oton J [4]
  • Qu K [4]
  • Lu JM [4]
  • Neufeldt CJ [4]
  • Xiong X [4]
  • Lowe J [4]
  • Beck M [4]
  • Merkel F [4]
  • Ke Z [4]
  • Allegretti M [4]
  • Aragon L [4]
  • Cortese M [4]
  • Zila V [4]
  • Briggs JAG [4]
  • Sinn LR [4]
  • Hagen WJ [3]
  • Zivanov J [3]
  • Scheres SH [3]
  • Lindahl E [3]
  • Forsberg BO [3]
  • Sente A [2]
  • Uchanski T [2]
  • Hardwick SW [2]
  • Chirgadze DY [2]
  • Yokoyama T [2]
  • Kotecha A [2]
  • Malinauskas T [2]
  • Nureki O [2]
  • Malinauskaite L [2]
  • Aricescu AR [2]
  • Wiriyasermkul P [1]
  • Jia Y [1]
  • Inoue M [1]
  • Nishizawa T [1]
  • Kikkawa M [1]
  • Watanabe K [1]
  • Lee Y [1]
  • Ishitani R [1]
  • Ichijo H [1]
  • Hattori M [1]
  • Ohgaki R [1]
  • Nagamori S [1]
  • Yanagisawa H [1]
  • Kasuya G [1]
  • Tsutsumi A [1]
  • Yan Z [1]
  • Quan L [1]

Journal

  • NAT STRUCT MOL BIOL [13]
  • NATURE [12]
  • TO BE PUBLISHED [10]
  • ELIFE [5]
  • MICROSC MICROANAL [2]
  • BIOCHEM J [1]
  • BIORXIV [1]
  • IUCRJ [1]
  • NAT METHODS [1]
  • SCIENCE [1]
  • THE BIOCHEMICAL JOURNAL [1]

Software

  • RELION [30]
  • GCTF [5]
  • CTFFIND [4]
  • IMOD [4]
  • MATLAB [4]
  • NOVACTF [4]
  • PHENIX [1]

Microscope

  • FEI TITAN KRIOS [31]
  • FEI TALOS ARCTICA [2]
  • FEI TECNAI ARCTICA [1]
  • JEOL CRYO ARM 300 [1]

Electron Source

  • FIELD EMISSION GUN [35]

Film or detector model

  • GATAN K2 SUMMIT 4K X 4K [19]
  • FEI FALCON III 4K X 4K [11]
  • FEI FALCON IV 4K X 4K [2]
  • GATAN K3 6K X 4K [2]
  • TVIPS TEMCAM-F416 4K X 4K [1]

EMPIAR Experiment type

  • EMDB [9]
  • EXCEPTION [1]

EMPIAR Image category

  • MICROGRAPHS - MULTIFRAME [7]
  • CLASS AVERAGES [1]
  • MICROGRAPHS - SINGLE FRAME [1]
  • PICKED PARTICLES - MULTIFRAME - PROCESSED [1]
  • PICKED PARTICLES - SINGLE FRAME - PROCESSED [1]
  • TILT SERIES [1]

External links

  • AlphaFold DB [21]
  • EMPIAR [13]
  • UniProt [13]
  • Gene Ontology [12]
  • InterPro [12]
  • PDB [12]
  • PDBe-Kb [12]
  • Pfam [12]
  • EMDB [9]
  • Complex Portal [8]
  • ChEBI [4]
  • ChEMBL [4]
  • DrugBank [2]
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EMPIAR-11720
Related EMDB
EMD-17806
Regularisation by denoising lowers the size barrier of cryo-EM structure determination
Release date: Oct. 20, 2023
Dataset size: 81.5 GB
Experiment type: EMDB

Kimanius D, Jamali K, Wilkinson M, Lövestam S, Velazhahan V, Nakane T, Scheres SHW

To Be Published

Image sets:
  • Polished particles
  • Aligned movies (MotionCorr)
EMD-33349
Download Map
3D View
Cryo-EM structure of GroEL bound to unfolded substrate UGT1A at 2.8 Ang. resolution Consensus Refinement
Release date: May 3, 2023
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7xoj
Q-score: 0.466

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33350
Download Map
3D View
Cryo-EM structure of double occupied ring DOR of GroEL-UGT1A complex at 2.7 Ang. resolution
Release date: May 3, 2023
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7xok
Q-score: 0.464

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33351
Download Map
3D View
Cryo-EM structure of single empty ring 2 SER2 of GroEL-UGT1A complex at 3.2 Ang. resolution
Release date: May 3, 2023
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 7xol
Q-score: 0.432

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33352
Download Map
3D View
Cryo-EM structure of occupied ring subunit 4 OR4 of GroEL complexed with polyalanine model of UGT1A from GroEL-UGT1A double occupied ring complex
Release date: May 3, 2023
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xom
Q-score: 0.448

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33353
Download Map
3D View
Cryo-EM structure of empty ring subunit 1 ER1 from single empty ring of GroEL-UGT1A complex
Release date: May 3, 2023
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7xon
Q-score: 0.47

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33354
Download Map
3D View
Cryo-EM structure of empty ring subunit 2 ER2 from GroEL-UGT1A single empty ring complex
Release date: May 3, 2023
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7xoo
Q-score: 0.492

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33355
Download Map
3D View
Cryo-EM structure of occupied ring subunit 1 OR1 of GroEL from GroEL-UGT1A double occupied ring complex
Release date: May 3, 2023
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7xop
Q-score: 0.485

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33356
Download Map
3D View
Cryo-EM structure of occupied ring subunit 2 OR2 of GroEL from GroEL-UGT1A double occupied ring complex
Release date: May 3, 2023
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7xoq
Q-score: 0.478

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

EMD-33357
Download Map
3D View
Cryo-EM structure of occupied ring subunit 3 OR3 of GroEL from GroEL-UGT1A double occupied ring complex
Release date: May 3, 2023
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7xor
Q-score: 0.473

Stapleton KM, Mizobata T, Miyazaki N, Takatsuji T, Kato T, Iwasaki K, Standley DM, Kawamura T, Nakane T, Takagi J, Mizohata E

To Be Published

Sort by: Download
Showing 1 - 10 of 45. Page 1 of 5
Display:
Statistics
×

Download












































Preview first 10
Download

Filter By

Current Database

  • EMDB [35]
  • EMPIAR [10]

Current status

  • REL [45]

Sample type

  • Complex [29]
  • Protein [28]
  • Ligand [6]
  • Virus [6]

Organism

  • Homo sapiens [16]
  • Escherichia coli [12]
  • Severe acute respiratory syndrome coronavirus [6]
  • Saccharomyces cerevisiae [5]
  • Mus musculus [4]
  • Saccharomyces cerevisiae [3]
  • Escherichia coli [1]
  • Equus caballus [1]
  • Lama glama [1]

EM Method

  • Single-particle [30]
  • Subtomogram averaging [4]
  • Electron Crystallography [1]

Resolution

  • < 2Å [5]
  • ≥ 2Å and < 3Å [4]
  • ≥ 3Å and < 4Å [11]
  • ≥ 4Å and < 5Å [4]
  • ≥ 5Å and < 6Å [1]
  • ≥ 6Å and < 8Å [5]
  • ≥ 8Å and < 12Å [5]

Model molecular weight

  • 50-100 kDa [3]
  • 100-250 kDa [1]
  • 250-500 kDa [2]
  • 500-1000 kDa [6]

Release Date

  • 2023 [11]
  • 2021 [1]
  • 2020 [21]
  • 2019 [5]
  • 2018 [7]

Author by name

  • Nakane T [43]
  • Scheres SHW [18]
  • Kato T [12]
  • Zivanov J [12]
  • Iwasaki K [10]
  • Kawamura T [10]
  • Miyazaki N [10]
  • Mizobata T [10]
  • Mizohata E [10]
  • Standley DM [10]
  • Stapleton K [10]
  • Stapleton KM [10]
  • Takagi J [10]
  • Takatsuji T [10]
  • Allegretti M [8]
  • Aragon L [8]
  • Beck M [8]
  • Bravo S [8]
  • Briggs JAG [8]
  • Cawood C [8]
  • Cortese M [8]
  • Gutierrez-escribano P [8]
  • Haering CH [8]
  • Hassler M [8]
  • Ke Z [8]
  • Kschonsak M [8]
  • Lecomte L [8]
  • Lee BG [8]
  • Lowe J [8]
  • Merkel F [8]
  • O Reilly Fj [8]
  • Rappsilber J [8]
  • Sinn LR [8]
  • Zila V [8]
  • Lu JM [7]
  • Oton J [7]
  • Peukes J [7]
  • Qu K [7]
  • Xiong X [7]
  • Bartenschlager R [6]
  • Cerikan B [6]
  • Krausslich HG [6]
  • Lee B-G [6]
  • Mckeane L [6]
  • Neufeldt CJ [6]
  • Ishitani R [5]
  • Kimanius D [5]
  • Nureki O [5]
  • Shirouzu M [5]
  • Yokoyama T [5]
  • Aricescu AR [4]
  • Bischoff M [4]
  • Brown PMGE [4]
  • Chirgadze DY [4]
  • Forsberg BO [4]
  • Grigoras IT [4]
  • Hagen WJ [4]
  • Hardwick SW [4]
  • Karia D [4]
  • Keizer J [4]
  • Kotecha A [4]
  • Kusakizako T [4]
  • Lindahl E [4]
  • Malinauskaite L [4]
  • Malinauskas T [4]
  • Masiulis S [4]
  • Mccormack J [4]
  • Mcmullan G [4]
  • Miehling J [4]
  • Murshudov G [4]
  • Nishizawa T [4]
  • Pechnikova EV [4]
  • Scheres SH [4]
  • Sente A [4]
  • Tiemeijer P [4]
  • Yu L [4]
  • De Jong E [4]
  • Endou H [3]
  • Hagen WJH [3]
  • Jin C [3]
  • Kanai Y [3]
  • Lee Y [3]
  • Nagamori S [3]
  • Oda K [3]
  • Ohgaki R [3]
  • Okuda S [3]
  • Quan L [3]
  • Wiriyasermkul P [3]
  • Ishikawa I [2]
  • Kaneko T [2]
  • Kasuya G [2]
  • Makino F [2]
  • Motoki S [2]
  • Namba K [2]
  • Shimizu Y [2]
  • Terahara N [2]
  • Uchanski T [2]
  • Uchański T [2]
  • Yonekura K [2]
  • Aquila A [1]

Author by ORCID

  • Nakane T [21]
  • Scheres SHW [6]
  • Takagi J [6]
  • Iwasaki K [6]
  • Stapleton KM [6]
  • Miyazaki N [6]
  • Mizohata E [6]
  • Mizobata T [6]
  • Kato T [6]
  • Standley DM [6]
  • Bartenschlager R [4]
  • Rappsilber J [4]
  • Cawood C [4]
  • Haering CH [4]
  • Peukes J [4]
  • Bravo S [4]
  • O'reilly FJ [4]
  • Lee BG [4]
  • Hassler M [4]
  • Gutierrez-escribano P [4]
  • Lecomte L [4]
  • Oton J [4]
  • Qu K [4]
  • Lu JM [4]
  • Neufeldt CJ [4]
  • Xiong X [4]
  • Lowe J [4]
  • Beck M [4]
  • Merkel F [4]
  • Ke Z [4]
  • Allegretti M [4]
  • Aragon L [4]
  • Cortese M [4]
  • Zila V [4]
  • Briggs JAG [4]
  • Sinn LR [4]
  • Hagen WJ [3]
  • Zivanov J [3]
  • Scheres SH [3]
  • Lindahl E [3]
  • Forsberg BO [3]
  • Sente A [2]
  • Uchanski T [2]
  • Hardwick SW [2]
  • Chirgadze DY [2]
  • Yokoyama T [2]
  • Kotecha A [2]
  • Malinauskas T [2]
  • Nureki O [2]
  • Malinauskaite L [2]
  • Aricescu AR [2]
  • Wiriyasermkul P [1]
  • Jia Y [1]
  • Inoue M [1]
  • Nishizawa T [1]
  • Kikkawa M [1]
  • Watanabe K [1]
  • Lee Y [1]
  • Ishitani R [1]
  • Ichijo H [1]
  • Hattori M [1]
  • Ohgaki R [1]
  • Nagamori S [1]
  • Yanagisawa H [1]
  • Kasuya G [1]
  • Tsutsumi A [1]
  • Yan Z [1]
  • Quan L [1]

Journal

  • NAT STRUCT MOL BIOL [13]
  • NATURE [12]
  • TO BE PUBLISHED [10]
  • ELIFE [5]
  • MICROSC MICROANAL [2]
  • BIOCHEM J [1]
  • BIORXIV [1]
  • IUCRJ [1]
  • NAT METHODS [1]
  • SCIENCE [1]
  • THE BIOCHEMICAL JOURNAL [1]

Software

  • RELION [30]
  • GCTF [5]
  • CTFFIND [4]
  • IMOD [4]
  • MATLAB [4]
  • NOVACTF [4]
  • PHENIX [1]

Microscope

  • FEI TITAN KRIOS [31]
  • FEI TALOS ARCTICA [2]
  • FEI TECNAI ARCTICA [1]
  • JEOL CRYO ARM 300 [1]

Electron Source

  • FIELD EMISSION GUN [35]

Film or detector model

  • GATAN K2 SUMMIT 4K X 4K [19]
  • FEI FALCON III 4K X 4K [11]
  • FEI FALCON IV 4K X 4K [2]
  • GATAN K3 6K X 4K [2]
  • TVIPS TEMCAM-F416 4K X 4K [1]

EMPIAR Experiment type

  • EMDB [9]
  • EXCEPTION [1]

EMPIAR Image category

  • MICROGRAPHS - MULTIFRAME [7]
  • CLASS AVERAGES [1]
  • MICROGRAPHS - SINGLE FRAME [1]
  • PICKED PARTICLES - MULTIFRAME - PROCESSED [1]
  • PICKED PARTICLES - SINGLE FRAME - PROCESSED [1]
  • TILT SERIES [1]

External links

  • AlphaFold DB [21]
  • EMPIAR [13]
  • UniProt [13]
  • Gene Ontology [12]
  • InterPro [12]
  • PDB [12]
  • PDBe-Kb [12]
  • Pfam [12]
  • EMDB [9]
  • Complex Portal [8]
  • ChEBI [4]
  • ChEMBL [4]
  • DrugBank [2]