Small Angle Scattering Biological Data Bank SASBDB


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33 hits found for Yonezawa

SASDTB2 – WAXS data of poly-histidine tagged Ribose binding protein (16 mg/mL) from Escherichia coli

Ribose import binding protein RbsB experimental SAS data

Ribose import binding protein RbsB Kratky plot

Sample:	Ribose import binding protein RbsB monomer, 30 kDa Escherichia coli (strain … protein
Buffer:	50 mM Tris, 50 mM NaCl, 10% glycerol, pH: 7
Experiment:	SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 9

SAXS/WAXS data of conformationally flexible ribose binding protein Data in Brief :109932 (2023)
...Yonezawa K, Anu A, Shimizu N, Chaudhuri B

R_g^Guinier	2.5	nm
D_max	12.0	nm
Volume^Porod	36	nm³

SASDTC2 – WAXS data of poly-histidine tagged Ribose binding protein (20 mg/mL) from Escherichia coli in the presence of 1 mM ribose

Ribose import binding protein RbsBRibose experimental SAS data

Ribose import binding protein RbsB Ribose Kratky plot

Sample:	Ribose import binding protein RbsB monomer, 30 kDa Escherichia coli (strain … protein Ribose monomer, 0 kDa
Buffer:	50 mM Tris, 50 mM NaCl, 10% glycerol, 1 mM ribose, pH: 7
Experiment:	SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 9

SAXS/WAXS data of conformationally flexible ribose binding protein Data in Brief :109932 (2023)
...Yonezawa K, Anu A, Shimizu N, Chaudhuri B

R_g^Guinier	2.2	nm
D_max	12.0	nm
Volume^Porod	36	nm³

SASDTD2 – WAXS data of poly-histidine tagged Ribose binding protein (17 mg/mL) from Escherichia coli in the presence of 5 mM ribose

Sample:	Ribose import binding protein RbsB monomer, 30 kDa Escherichia coli (strain … protein Ribose monomer, 0 kDa
Buffer:	Tris 50 mM, 50 mM NaCl, 10% glycerol, 5 mM ribose, pH: 7
Experiment:	SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 9

SAXS/WAXS data of conformationally flexible ribose binding protein Data in Brief :109932 (2023)
...Yonezawa K, Anu A, Shimizu N, Chaudhuri B

R_g^Guinier	1.9	nm
D_max	10.7	nm
Volume^Porod	25	nm³

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

Bacterial cellulose synthesis subunit C experimental SAS data

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

R_g^Guinier	5.1	nm
D_max	18.5	nm
Volume^Porod	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

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

R_g^Guinier	3.8	nm
D_max	13.0	nm
Volume^Porod	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

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

R_g^Guinier	5.1	nm
D_max	20.0	nm
Volume^Porod	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

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

R_g^Guinier	6.5	nm
D_max	24.0	nm
Volume^Porod	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

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

R_g^Guinier	1.9	nm
D_max	6.2	nm
Volume^Porod	44	nm³

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

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

R_g^Guinier	1.9	nm
D_max	7.0	nm
Volume^Porod	44	nm³

SASDMV5 – Kinesin superfamily protein 3 A/B and kinesin associated protein 3 (KAP)

Kinesin-like protein KIF3BKinesin-associated protein 3Kinesin-like protein KIF3A experimental SAS data

Sample:	Kinesin-like protein KIF3B monomer, 32 kDa Mus musculus protein Kinesin-associated protein 3 monomer, 81 kDa Mus musculus protein Kinesin-like protein KIF3A monomer, 28 kDa Mus musculus protein
Buffer:	20 mM Tris-HCl, 200 mM NaCl, 5% glycerol, 1 mM DTT, pH: 8
Experiment:	SAXS data collected at BL-15A2, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Jun 24

The two-step cargo recognition mechanism of heterotrimeric kinesin. EMBO Rep :e56864 (2023)
...Yonezawa K, Shimizu N, Ichinose S, Uchihashi T, Nagaike W, Moriya T, Adachi N, Kawasaki M, Dohmae N, Senda T, Hirokawa N

R_g^Guinier	5.8	nm
D_max	27.0	nm
Volume^Porod	557	nm³

SASDMW5 – Kinesin superfamily protein 3 A/B and kinesin associated protein 3 (KAP) with APC ARM

Adenomatous polyposis coli protein (N-terminal ARM domain)Kinesin-like protein KIF3AKinesin-like protein KIF3BKinesin-associated protein 3 experimental SAS data

Sample:	Adenomatous polyposis coli protein (N-terminal ARM domain) monomer, 75 kDa Mus musculus protein Kinesin-like protein KIF3A monomer, 28 kDa Mus musculus protein Kinesin-like protein KIF3B monomer, 32 kDa Mus musculus protein Kinesin-associated protein 3 monomer, 81 kDa Mus musculus protein
Buffer:	25 mM Tris-HCl, 200 mM NaCl, 1 mM DTT, 5% glycerol, pH: 8
Experiment:	SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Nov 17

R_g^Guinier	5.4	nm
D_max	19.5	nm
Volume^Porod	763	nm³