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22 hits found for Yonezawa

SASDD53 – Tetratrico peptide repeat domain of Bacterial cellulose synthesis subunit C

Bacterial cellulose synthesis subunit C experimental SAS data
DAMMIF model
Sample: Bacterial cellulose synthesis subunit C monomer, 71 kDa Enterobacter sp. CJF-002 protein
Buffer: 50 mM HEPES, 100 mM KCl, pH: 8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2017 Apr 24
Crystal structure of the flexible tandem repeat domain of bacterial cellulose synthesis subunit C. Sci Rep 7(1):13018 (2017)
...Yonezawa K, Tajima K, Yao M
RgGuinier 5.1 nm
Dmax 18.5 nm
VolumePorod 115 nm3

SASDDR3 – Yeast tRNA Nm34 methyltransferase Trm7-Trm734 complex from Sacharomyces cerevisiae

Trm7: tRNA (cytidine(32)/guanosine(34)-2'-O)-methyltransferaseTrm734: Regulator of Ty1 transposition protein 10 experimental SAS data
CORAL model
Sample: Trm7: tRNA (cytidine(32)/guanosine(34)-2'-O)-methyltransferase monomer, 36 kDa Saccharomyces cerevisiae protein
Trm734: Regulator of Ty1 transposition protein 10 monomer, 116 kDa Saccharomyces cerevisiae protein
Buffer: 50 mM HEPES, 200 mM KCl, 5% v/v Glycerol, 10mM β-mercaptoethanol, pH: 8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2015 Dec 16
Structure of tRNA methyltransferase complex of Trm7 and Trm734 reveals a novel binding interface for tRNA recognition. Nucleic Acids Res (2019)
...Yonezawa K, Shimizu N, Hori H
RgGuinier 3.8 nm
Dmax 13.0 nm
VolumePorod 218 nm3

SASDFR4 – HP2042 form from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, Trp repressor from Escherichia coli (Domain A (PDB:3MLI)-Linker (PDB:1BR0)-Domain B (PDB:1WRT))

HP2042 form from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, Trp repressor from Escherichia coli experimental SAS data
CORAL model
Sample: HP2042 form from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, Trp repressor from Escherichia coli tetramer, 150 kDa Helicobacter pylori, Rattus … protein
Buffer: 20 mM Tris-HCl 150 mM NaCl, pH: 8
Experiment: SAXS data collected at Rigaku Nano-Viewer, Nara Institute of Science and Technology on 2016 Dec 8
Construction of a Quadrangular Tetramer and a Cage-Like Hexamer from Three-Helix Bundle-Linked Fusion Proteins. ACS Synth Biol (2019)
...Yonezawa K, Shimizu N, Kamikubo H, Hirota S
RgGuinier 5.1 nm
Dmax 20.0 nm
VolumePorod 379 nm3

SASDFS4 – HP0242 from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, de novo designed coiled-coil trimer domain (Domain A (PDB:3MLI)-Linker (PDB:1BR0)-Domain B (PDB:4DZL))

HP0242 from Helicobacter pylori,  N-terminal domain of syntaxin-1A from Rattus norvegicus, de novo designed coiled-coil trimer domain experimental SAS data
CORAL model
Sample: HP0242 from Helicobacter pylori, N-terminal domain of syntaxin-1A from Rattus norvegicus, de novo designed coiled-coil trimer domain hexamer, 179 kDa Helicobacter pylori, Rattus … protein
Buffer: 20 mM Tris-HCl 150 mM NaCl, pH: 8
Experiment: SAXS data collected at Rigaku Nano-Viewer, Nara Institute of Science and Technology on 2017 Mar 29
Construction of a Quadrangular Tetramer and a Cage-Like Hexamer from Three-Helix Bundle-Linked Fusion Proteins. ACS Synth Biol (2019)
...Yonezawa K, Shimizu N, Kamikubo H, Hirota S
RgGuinier 6.5 nm
Dmax 24.0 nm
VolumePorod 642 nm3

SASDN55 – A recoverin homology domain with EF hand domain of diacylglycerol kinase alpha under the condition with CaCl2

Diacylglycerol kinase alpha experimental SAS data
DAMMIF model
Sample: Diacylglycerol kinase alpha monomer, 22 kDa Homo sapiens protein
Buffer: 20 mM TrisHCl, 200 mM NaCl, 5 mM DTT, 5% v/v glycerol, 3 mM CaCl2, pH: 7.4
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Dec 8
Ca 2+ ‐induced structural changes and intramolecular interactions in N‐terminal region of diacylglycerol kinase alpha Protein Science 31(7) (2022)
...Yonezawa K, Okizaki Y, Caaveiro J, Ueda T, Shimada A, Sakane F, Shimizu N
RgGuinier 1.9 nm
Dmax 6.2 nm
VolumePorod 44 nm3

SASDN65 – A recoverin homology domain with EF hand domain of diacylglycerol kinase alpha under the condition without CaCl2

Diacylglycerol kinase alpha experimental SAS data
DAMMIF model
Sample: Diacylglycerol kinase alpha monomer, 22 kDa Homo sapiens protein
Buffer: 20mM TrisHCl, 200mM NaCl, 5mM DTT, 5% v/v Glycerol, 3mM EGTA, pH: 7.4
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Dec 8
Ca 2+ ‐induced structural changes and intramolecular interactions in N‐terminal region of diacylglycerol kinase alpha Protein Science 31(7) (2022)
...Yonezawa K, Okizaki Y, Caaveiro J, Ueda T, Shimada A, Sakane F, Shimizu N
RgGuinier 1.9 nm
Dmax 7.0 nm
VolumePorod 44 nm3

SASDMY7 – Poly-histidine tagged Myosin X component at 8979 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.5 nm
VolumePorod 24 nm3

SASDMZ7 – Poly-histidine tagged Myosin X component at 8981 eV

Unconventional myosin-X experimental SAS data
Unconventional myosin-X Kratky plot
Sample: Unconventional myosin-X dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm
VolumePorod 24 nm3

SASDM28 – Poly-histidine tagged Myosin X component at 8983 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm
VolumePorod 24 nm3

SASDM38 – Poly-histidine tagged Myosin X component at 8985 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm
VolumePorod 24 nm3

SASDM48 – Poly-histidine tagged Myosin X component at 8987 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm
VolumePorod 24 nm3

SASDM58 – Poly-histidine tagged Myosin X component at 8989 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm
VolumePorod 24 nm3

SASDM68 – Poly-histidine tagged Myosin X component at 8991 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm
VolumePorod 24 nm3

SASDM78 – Poly-histidine tagged Myosin X component at 8993 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.2 nm
Dmax 8.0 nm

SASDM88 – Poly-histidine tagged Myosin X component with CuSO4 at 8979 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.4 nm
Dmax 10.5 nm
VolumePorod 27 nm3

SASDM98 – Poly-histidine tagged Myosin X component with CuSO4 at 8981 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.5 nm
Dmax 11.5 nm
VolumePorod 27 nm3

SASDMA8 – Poly-histidine tagged Myosin X component with CuSO4 at 8983 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.4 nm
Dmax 10.5 nm
VolumePorod 27 nm3

SASDMB8 – Poly-histidine tagged Myosin X component with CuSO4 at 8985 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.5 nm
Dmax 11.5 nm
VolumePorod 27 nm3

SASDMC8 – Poly-histidine tagged Myosin X component with CuSO4 at 8987 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.4 nm
Dmax 11.0 nm
VolumePorod 28 nm3

SASDMD8 – Poly-histidine tagged Myosin X component with CuSO4 at 8989 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.4 nm
Dmax 11.5 nm
VolumePorod 27 nm3

SASDME8 – Poly-histidine tagged Myosin X component with CuSO4 at 8991 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.4 nm
Dmax 11.5 nm
VolumePorod 28 nm3

SASDMF8 – Poly-histidine tagged Myosin X component with CuSO4 at 8993 eV

Unconventional myosin-X component experimental SAS data
Unconventional myosin-X component Kratky plot
Sample: Unconventional myosin-X component dimer, 15 kDa Homo sapiens protein
Buffer: HEPES, 5% glycerol, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2021 Mar 16
K -edge anomalous SAXS for protein solution structure modeling Acta Crystallographica Section D Structural Biology 78(2) (2022)
...Yonezawa K, Choukate K, Singh L, Shimizu N, Chaudhuri B
RgGuinier 2.4 nm
Dmax 11.5 nm
VolumePorod 28 nm3