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18 hits found for Stefano Da Vela

SASDGD2 – Putative mitochondrial transferase CAF17: human IBA57

Putative transferase CAF17, mitochondrial experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Putative transferase CAF17, mitochondrial monomer, 33 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Jul 10
Structural properties of [2Fe-2S] ISCA2-IBA57: a complex of the mitochondrial iron-sulfur cluster assembly machinery Scientific Reports 9(1) (2019)
...Da Vela S, Gourdoupis S, Ciofi-Baffoni S, Svergun D, Banci L
RgGuinier 2.2 nm
Dmax 7.1 nm
VolumePorod 50 nm3

SASDGE2 – Human mitochondrial iron-sulfur cluster assembly ISCA2 protein

Iron-sulfur cluster assembly 2 homolog, mitochondrial experimental SAS data
SASREF model
Sample: Iron-sulfur cluster assembly 2 homolog, mitochondrial dimer, 24 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Sep 16
Structural properties of [2Fe-2S] ISCA2-IBA57: a complex of the mitochondrial iron-sulfur cluster assembly machinery Scientific Reports 9(1) (2019)
...Da Vela S, Gourdoupis S, Ciofi-Baffoni S, Svergun D, Banci L
RgGuinier 2.0 nm
Dmax 6.7 nm
VolumePorod 31 nm3

SASDGF2 – Putative mitochondrial transferase CAF17 bound to mitochondrial iron-sulfur cluster assembly ISCA2 protein (human IBA57-ISCA2 complex)

Putative transferase CAF17, mitochondrialIron-sulfur cluster assembly 2 homolog, mitochondrial experimental SAS data
SASREF CV model
Sample: Putative transferase CAF17, mitochondrial monomer, 33 kDa Homo sapiens protein
Iron-sulfur cluster assembly 2 homolog, mitochondrial dimer, 24 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Nov 22
Structural properties of [2Fe-2S] ISCA2-IBA57: a complex of the mitochondrial iron-sulfur cluster assembly machinery Scientific Reports 9(1) (2019)
...Da Vela S, Gourdoupis S, Ciofi-Baffoni S, Svergun D, Banci L
RgGuinier 4.0 nm
Dmax 16.4 nm
VolumePorod 114 nm3

SASDLT2 – 6D11 IgG monoclonal antibody

Anti-prion protein monoclonal IgG2a 6D11 experimental SAS data
CORAL model
Sample: Anti-prion protein monoclonal IgG2a 6D11 monomer, 145 kDa Mus musculus protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Dec 15
Ligands binding to the prion protein induce its proteolytic release with therapeutic potential in neurodegenerative proteinopathies. Sci Adv 7(48):eabj1826 (2021)
...Damme M, Song F, Schwarz A, Da Vela S, Massignan T, Jung S, Correia A, Schmitz M, Puig B, Hornemann S, Zerr I, Tatzelt J, Biasini E, Saftig P, Schweizer M, Svergun D, Amin L, Mazzola F, Varani L, Thap...
RgGuinier 5.1 nm
Dmax 17.4 nm
VolumePorod 330 nm3

SASDLU2 – 2:1 complex between anti prion protein monoclonal IgG 6D11 and recombinant murine prion protein

Major prion proteinAnti-prion protein monoclonal IgG2a 6D11 experimental SAS data
OTHER model
Sample: Major prion protein monomer, 23 kDa Mus musculus protein
Anti-prion protein monoclonal IgG2a 6D11 monomer, 145 kDa Mus musculus protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Dec 15
Ligands binding to the prion protein induce its proteolytic release with therapeutic potential in neurodegenerative proteinopathies. Sci Adv 7(48):eabj1826 (2021)
...Damme M, Song F, Schwarz A, Da Vela S, Massignan T, Jung S, Correia A, Schmitz M, Puig B, Hornemann S, Zerr I, Tatzelt J, Biasini E, Saftig P, Schweizer M, Svergun D, Amin L, Mazzola F, Varani L, Thap...
RgGuinier 8.1 nm
Dmax 24.8 nm
VolumePorod 710 nm3

SASDQM4 – CRISPR associated Lon protease (CalpL)

SAVED domain-containing protein experimental SAS data
DAMMIF model
Sample: SAVED domain-containing protein monomer, 58 kDa Sulfurihydrogenibium sp. (strain … protein
Buffer: 20 mM Tris, 50 mM NaCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Dec 14
Antiviral signalling by a cyclic nucleotide activated CRISPR protease. Nature 614(7946):168-174 (2023)
...Da Vela S, Ackermann K, Moecking J, Peter MF, Boenigk W, Seifert R, Bode BE, Schmid-Burgk JL, Svergun D, Geyer M, White MF, Hagelueken G
RgGuinier 3.1 nm
Dmax 10.3 nm
VolumePorod 80 nm3

SASDQN4 – ...Da C-terminal fragment of CalpT a putative MazF-like toxin (CalpT10)

SAVED domain-containing proteinUncharacterized protein (putative MazF-like toxin) experimental SAS data
CUSTOM IN-HOUSE model
Sample: SAVED domain-containing protein monomer, 58 kDa Sulfurihydrogenibium sp. (strain … protein
Uncharacterized protein (putative MazF-like toxin) monomer, 9 kDa Sulfurihydrogenibium sp. (strain … protein
Buffer: 20 mM Tris, 50 mM NaCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Dec 14
Antiviral signalling by a cyclic nucleotide activated CRISPR protease. Nature 614(7946):168-174 (2023)
...Da Vela S, Ackermann K, Moecking J, Peter MF, Boenigk W, Seifert R, Bode BE, Schmid-Burgk JL, Svergun D, Geyer M, White MF, Hagelueken G
RgGuinier 3.4 nm
Dmax 11.7 nm
VolumePorod 93 nm3

SASDQP4 – CRISPR associated Lon protease (CalpL) in the presence of cyclic oligoadenylate cA4

SAVED domain-containing protein experimental SAS data
DAMMIF model
Sample: SAVED domain-containing protein monomer, 58 kDa Sulfurihydrogenibium sp. (strain … protein
Buffer: 20 mM Tris, 50 mM NaCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Apr 8
Antiviral signalling by a cyclic nucleotide activated CRISPR protease. Nature 614(7946):168-174 (2023)
...Da Vela S, Ackermann K, Moecking J, Peter MF, Boenigk W, Seifert R, Bode BE, Schmid-Burgk JL, Svergun D, Geyer M, White MF, Hagelueken G
RgGuinier 3.2 nm
Dmax 10.3 nm
VolumePorod 82 nm3

SASDQQ4 – CRISPR associated Lon protease (CalpL) asymmetrically dimerizing in the presence of cyclic oligoadenylate cA4

SAVED domain-containing protein experimental SAS data
SASREF MX model
Sample: SAVED domain-containing protein monomer, 58 kDa Sulfurihydrogenibium sp. (strain … protein
Buffer: 20 mM Tris, 50 mM NaCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Apr 8
Antiviral signalling by a cyclic nucleotide activated CRISPR protease. Nature 614(7946):168-174 (2023)
...Da Vela S, Ackermann K, Moecking J, Peter MF, Boenigk W, Seifert R, Bode BE, Schmid-Burgk JL, Svergun D, Geyer M, White MF, Hagelueken G
RgGuinier 3.8 nm
Dmax 13.0 nm
VolumePorod 116 nm3

SASDLS4 – Tau35, C-terminal fragment of human Tau protein

Microtubule-associated protein tau, Tau35 fragment experimental SAS data
Tau35, C-terminal fragment of human Tau protein Rg histogram
Sample: Microtubule-associated protein tau, Tau35 fragment monomer, 27 kDa Homo sapiens protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 8
The Disease Associated Tau35 Fragment has an Increased Propensity to Aggregate Compared to Full-Length Tau Frontiers in Molecular Biosciences 8 (2021)
...Da Vela S, Al-Hilaly Y, Marshall K, Thorogate R, Svergun D, Serpell L, Pastore A, Hanger D
RgGuinier 4.6 nm
Dmax 16.2 nm
VolumePorod 93 nm3

SASDLT4 – Tau protein, 2N3R isoform

Microtubule-associated protein tau, 2N3R isoform experimental SAS data
Tau protein, 2N3R isoform Rg histogram
Sample: Microtubule-associated protein tau, 2N3R isoform monomer, 43 kDa Homo sapiens protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 8
The Disease Associated Tau35 Fragment has an Increased Propensity to Aggregate Compared to Full-Length Tau Frontiers in Molecular Biosciences 8 (2021)
...Da Vela S, Al-Hilaly Y, Marshall K, Thorogate R, Svergun D, Serpell L, Pastore A, Hanger D
RgGuinier 6.3 nm
Dmax 19.8 nm
VolumePorod 211 nm3

SASDLU4 – Tau protein, 2N4R isoform

Microtubule-associated protein tau, 2N4R isoform experimental SAS data
Tau protein, 2N4R isoform Rg histogram
Sample: Microtubule-associated protein tau, 2N4R isoform monomer, 46 kDa Homo sapiens protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 8
The Disease Associated Tau35 Fragment has an Increased Propensity to Aggregate Compared to Full-Length Tau Frontiers in Molecular Biosciences 8 (2021)
...Da Vela S, Al-Hilaly Y, Marshall K, Thorogate R, Svergun D, Serpell L, Pastore A, Hanger D
RgGuinier 6.7 nm
Dmax 23.5 nm
VolumePorod 254 nm3

SASDP98 – Human apo iron-sulfur cluster assembly 1 (ISCA1)

Iron-sulfur cluster assembly 1 homolog, mitochondrial experimental SAS data
DAMMIF model
Sample: Iron-sulfur cluster assembly 1 homolog, mitochondrial monomer, 14 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Mar 27
Structural plasticity of NFU1 upon interaction with binding partners: insights into the mitochondrial [4Fe-4S] cluster pathway Journal of Molecular Biology :168154 (2023)
Da Vela S, Saudino G, Lucarelli F, Banci L, Svergun D, Ciofi-Baffoni S
RgGuinier 1.9 nm
Dmax 6.8 nm
VolumePorod 25 nm3

SASDPA8 – Human apo NFU1 iron-sulfur cluster scaffold protein

NFU1 iron-sulfur cluster scaffold homolog, mitochondrial (F118S, E168G) experimental SAS data
Human apo NFU1 iron-sulfur cluster scaffold protein Rg histogram
Sample: NFU1 iron-sulfur cluster scaffold homolog, mitochondrial (F118S, E168G) monomer, 22 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Mar 27
Structural plasticity of NFU1 upon interaction with binding partners: insights into the mitochondrial [4Fe-4S] cluster pathway Journal of Molecular Biology :168154 (2023)
Da Vela S, Saudino G, Lucarelli F, Banci L, Svergun D, Ciofi-Baffoni S
RgGuinier 2.4 nm
Dmax 9.3 nm
VolumePorod 32 nm3

SASDPB8 – Human apo iron-sulfur cluster assembly 1/NFU1 iron-sulfur cluster scaffold protein complex (ISCA1-NFU1)

Iron-sulfur cluster assembly 1 homolog, mitochondrialNFU1 iron-sulfur cluster scaffold homolog, mitochondrial (F118S, E168G) experimental SAS data
DAMMIF model
Sample: Iron-sulfur cluster assembly 1 homolog, mitochondrial monomer, 14 kDa Homo sapiens protein
NFU1 iron-sulfur cluster scaffold homolog, mitochondrial (F118S, E168G) monomer, 22 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Mar 27
Structural plasticity of NFU1 upon interaction with binding partners: insights into the mitochondrial [4Fe-4S] cluster pathway Journal of Molecular Biology :168154 (2023)
Da Vela S, Saudino G, Lucarelli F, Banci L, Svergun D, Ciofi-Baffoni S
RgGuinier 2.6 nm
Dmax 9.0 nm
VolumePorod 43 nm3

SASDPC8 – Human apo iron-sulfur cluster assembly 1/iron-sulfur cluster assembly 2 complex (ISCA1-ISCA2)

Iron-sulfur cluster assembly 1 homolog, mitochondrialIron-sulfur cluster assembly 2 homolog, mitochondrial experimental SAS data
DAMMIF model
Sample: Iron-sulfur cluster assembly 1 homolog, mitochondrial monomer, 14 kDa Homo sapiens protein
Iron-sulfur cluster assembly 2 homolog, mitochondrial monomer, 13 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Mar 27
Structural plasticity of NFU1 upon interaction with binding partners: insights into the mitochondrial [4Fe-4S] cluster pathway Journal of Molecular Biology :168154 (2023)
Da Vela S, Saudino G, Lucarelli F, Banci L, Svergun D, Ciofi-Baffoni S
RgGuinier 2.4 nm
Dmax 7.8 nm
VolumePorod 43 nm3

SASDPD8 – Human apo iron-sulfur cluster assembly 1/iron-sulfur cluster assembly 2/NFU1 iron-sulfur cluster scaffold protein complex (ISCA1-ISCA2-NFU1)

Iron-sulfur cluster assembly 1 homolog, mitochondrialNFU1 iron-sulfur cluster scaffold homolog, mitochondrial (F118S, E168G)Iron-sulfur cluster assembly 2 homolog, mitochondrial experimental SAS data
CORAL model
Sample: Iron-sulfur cluster assembly 1 homolog, mitochondrial monomer, 14 kDa Homo sapiens protein
NFU1 iron-sulfur cluster scaffold homolog, mitochondrial (F118S, E168G) monomer, 22 kDa Homo sapiens protein
Iron-sulfur cluster assembly 2 homolog, mitochondrial monomer, 13 kDa Homo sapiens protein
Buffer: 50 mM phosphate, 150 mM NaCl, 5 mM DTT, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Mar 27
Structural plasticity of NFU1 upon interaction with binding partners: insights into the mitochondrial [4Fe-4S] cluster pathway Journal of Molecular Biology :168154 (2023)
Da Vela S, Saudino G, Lucarelli F, Banci L, Svergun D, Ciofi-Baffoni S
RgGuinier 3.2 nm
Dmax 11.7 nm
VolumePorod 70 nm3

SASDHV9 – Murine major prion protein PrPc 23-230

Major prion protein experimental SAS data
CORAL model
Sample: Major prion protein monomer, 23 kDa Mus musculus protein
Buffer: 10mM HEPES, 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Dec 15
Characterization of murine prion protein
Stefano Da Vela
RgGuinier 2.8 nm
Dmax 9.9 nm
VolumePorod 43 nm3