SASBDB entries for UniProt ID:

SASDKU9 – Thymidylate kinase (dTMP kinase) at pH 8.0

UniProt ID: A0A1P6BP23 (1-213) dTMP kinase
dTMP kinase experimental SAS data
GASBOR model
Sample: DTMP kinase dimer, 57 kDa Brugia malayi protein
Buffer: 20 mM Tris, 150 mM NaCl, pH: 8
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR-Central Drug Research Institute on 2018 Oct 7
Crystal Structure of the Brugia malayi Thymidylate Kinase-dTMP Complex and Small Angle X-ray Scattering Experiments Identifies Changes in the Dimeric Association Compared to the Human Homolog Crystallography Reports 68(7):1150-1158 (2024)
Vishwakarma J, Sharma V, Kumar S, Ramachandran R
RgGuinier 3.0 nm
Dmax 8.4 nm
VolumePorod 81 nm3

SASDKV9 – Transcription factors USF1 and NF-Y bound to a CCAAT DNA box(48bp)

UniProt ID: P22415 (106-310) Upstream stimulatory factor 1

UniProt ID: P23511 (262-332) Nuclear transcription factor Y subunit alpha

UniProt ID: P25208 (52-143) Nuclear transcription factor Y subunit beta

UniProt ID: Q13952 (27-120) Nuclear transcription factor Y subunit gamma

UniProt ID: None (None-None) DNA 48bp
Upstream stimulatory factor 1Nuclear transcription factor Y subunit alphaNuclear transcription factor Y subunit betaNuclear transcription factor Y subunit gammaDNA 48bp experimental SAS data
CORAL model
Sample: Upstream stimulatory factor 1 dimer, 50 kDa Homo sapiens protein
Nuclear transcription factor Y subunit alpha monomer, 10 kDa Homo sapiens protein
Nuclear transcription factor Y subunit beta monomer, 11 kDa Homo sapiens protein
Nuclear transcription factor Y subunit gamma monomer, 11 kDa Homo sapiens protein
DNA 48bp monomer, 30 kDa DNA
Buffer: 100 mM cacodylate buffer, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 14
The USR domain of USF1 mediates NF-Y interactions and cooperative DNA binding International Journal of Biological Macromolecules (2021)
Bernardini A, Lorenzo M, Chaves-Sanjuan A, Swuec P, Pigni M, Saad D, Konarev P, Graewert M, Valentini E, Svergun D, Nardini M, Mantovani R, Gnesutta N
RgGuinier 4.8 nm
Dmax 17.0 nm
VolumePorod 155 nm3

SASDKW9 – Transcription factors USF1 and NF-Y bound to a CCAAT DNA box(50bp)

UniProt ID: P22415 (106-310) Upstream stimulatory factor 1

UniProt ID: P23511 (262-332) Nuclear transcription factor Y subunit alpha

UniProt ID: P25208 (52-143) Nuclear transcription factor Y subunit beta

UniProt ID: Q13952 (27-120) Nuclear transcription factor Y subunit gamma

UniProt ID: None (None-None) DNA 50bp
Upstream stimulatory factor 1Nuclear transcription factor Y subunit alphaNuclear transcription factor Y subunit betaNuclear transcription factor Y subunit gammaDNA 50bp experimental SAS data
DAMMIN model
Sample: Upstream stimulatory factor 1 dimer, 50 kDa Homo sapiens protein
Nuclear transcription factor Y subunit alpha monomer, 10 kDa Homo sapiens protein
Nuclear transcription factor Y subunit beta monomer, 11 kDa Homo sapiens protein
Nuclear transcription factor Y subunit gamma monomer, 11 kDa Homo sapiens protein
DNA 50bp monomer, 31 kDa DNA
Buffer: 100 mM cacodylate buffer, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 14
The USR domain of USF1 mediates NF-Y interactions and cooperative DNA binding International Journal of Biological Macromolecules (2021)
Bernardini A, Lorenzo M, Chaves-Sanjuan A, Swuec P, Pigni M, Saad D, Konarev P, Graewert M, Valentini E, Svergun D, Nardini M, Mantovani R, Gnesutta N
RgGuinier 4.8 nm
Dmax 17.0 nm
VolumePorod 165 nm3

SASDKX9 – Transcription factors MAX and NF-Y bound to a CCAAT DNA box(48bp)

UniProt ID: P61244 (1-160) Protein max (Isoform 2, short, 13-21: missing)

UniProt ID: P23511 (262-332) Nuclear transcription factor Y subunit alpha

UniProt ID: P25208 (52-143) Nuclear transcription factor Y subunit beta

UniProt ID: Q13952 (27-120) Nuclear transcription factor Y subunit gamma

UniProt ID: None (None-None) DNA 48bp
Protein max (Isoform 2, short, 13-21: missing)Nuclear transcription factor Y subunit alphaNuclear transcription factor Y subunit betaNuclear transcription factor Y subunit gammaDNA 48bp experimental SAS data
DAMMIN model
Sample: Protein max (Isoform 2, short, 13-21: missing) dimer, 39 kDa Homo sapiens protein
Nuclear transcription factor Y subunit alpha monomer, 10 kDa Homo sapiens protein
Nuclear transcription factor Y subunit beta monomer, 11 kDa Homo sapiens protein
Nuclear transcription factor Y subunit gamma monomer, 11 kDa Homo sapiens protein
DNA 48bp monomer, 30 kDa DNA
Buffer: 100 mM cacodylate buffer, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2012 Dec 10
The USR domain of USF1 mediates NF-Y interactions and cooperative DNA binding International Journal of Biological Macromolecules (2021)
Bernardini A, Lorenzo M, Chaves-Sanjuan A, Swuec P, Pigni M, Saad D, Konarev P, Graewert M, Valentini E, Svergun D, Nardini M, Mantovani R, Gnesutta N
RgGuinier 5.2 nm
Dmax 17.0 nm
VolumePorod 151 nm3

SASDKY9 – A minimal intact methyltransferase of a type I restriction-modification system

UniProt ID: Q7MJG0 (None-None) Type I restriction-modification system methyltransferase subunit

UniProt ID: P03775 (None-None) Protein Ocr
Type I restriction-modification system methyltransferase subunitProtein Ocr experimental SAS data
DAMMIF model
Sample: Type I restriction-modification system methyltransferase subunit dimer, 144 kDa Vibrio vulnificus (strain … protein
Protein Ocr dimer, 28 kDa Escherichia phage T7 protein
Buffer: 20 mM Tris-HCl,150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2020 Apr 22
Structural features of a minimal intact methyltransferase of a type I restriction-modification system. Int J Biol Macromol (2022)
Seo PW, Hofmann A, Kim JH, Hwangbo SA, Kim JH, Kim JW, Huynh TYL, Choy HE, Kim SJ, Lee J, Lee JO, Jin KS, Park SY, Kim JS
RgGuinier 4.2 nm
Dmax 15.9 nm
VolumePorod 354 nm3

SASDL42 – Human Heat Shock Cognate 71 kDa Protein (HSPA8 / Hsc70)

UniProt ID: P11142 (1-646) Heat shock cognate 71 kDa protein
Heat shock cognate 71 kDa protein experimental SAS data
Human Heat Shock Cognate 71 kDa Protein (HSPA8 / Hsc70) Rg histogram
Sample: Heat shock cognate 71 kDa protein monomer, 71 kDa Homo sapiens protein
Buffer: 25 mM Tris HCl, 50 mM NaCl, 5 mM Sodium Phosphate, 5 mM KCl, pH: 7.5
Experiment: SAXS data collected at SAXS1 Beamline, Brazilian Synchrotron Light Laboratory on 2018 May 18
Structural, thermodynamic and functional studies of human 71 kDa heat shock cognate protein (HSPA8/hHsc70) Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics :140719 (2021)
Silva N, de Camargo Rodrigues L, Dores-Silva P, Montanari C, Ramos C, Barbosa L, Borges J
RgGuinier 3.7 nm
Dmax 11.5 nm
VolumePorod 111 nm3

SASDL52 – Human Heat Shock 70 kDa Protein 1A (Hsp70-1A/HSPA1A)

UniProt ID: P0DMV8 (1-586) Heat shock 70 kDa protein 1A
Heat shock 70 kDa protein 1A experimental SAS data
DAMMIN model
Sample: Heat shock 70 kDa protein 1A monomer, 70 kDa Homo sapiens protein
Buffer: 25 mM Tris HCl, 50 mM NaCl, 5 mM Sodium Phosphate, 5 mM KCl, pH: 7.5
Experiment: SAXS data collected at SAXS1 Beamline, Brazilian Synchrotron Light Laboratory on 2018 May 18
Structural, thermodynamic and functional studies of human 71 kDa heat shock cognate protein (HSPA8/hHsc70) Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics :140719 (2021)
Silva N, de Camargo Rodrigues L, Dores-Silva P, Montanari C, Ramos C, Barbosa L, Borges J
RgGuinier 3.7 nm
Dmax 11.0 nm
VolumePorod 138 nm3

SASDL62 – The truncated RTX domain of adenylate cyclase toxin CyaA - construct RTX-1 (amino acids 1132-1294 and 1562-1681 of CyaA)

UniProt ID: P0DKX7 (None-None) hybrid RTX-1 construct (amino acids 1132-1294 and 1562-1681 of CyaA)
hybrid RTX-1 construct (amino acids 1132-1294 and 1562-1681 of CyaA) experimental SAS data
DAMFILT model
Sample: Hybrid RTX-1 construct (amino acids 1132-1294 and 1562-1681 of CyaA) monomer, 30 kDa Bordetella pertussis protein
Buffer: 10 mM Tris HCl, 150 mM NaCl, 10 mM CaCl₂, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Dec 1
Almost half of the RTX domain is dispensable for complement receptor 3 binding and cell-invasive activity of the adenylate cyclase toxin. J Biol Chem :100833 (2021)
Espinosa-Vinals CA, Masin J, Holubova J, Stanek O, Jurnecka D, Osicka R, Sebo P, Bumba L
RgGuinier 2.4 nm
Dmax 8.2 nm
VolumePorod 41 nm3

SASDL72 – The truncated RTX domain of adenylate cyclase toxin CyaA - construct RTX-2 (amino acids 1132-1303 and 1562-1681 of CyaA)

UniProt ID: P0DKX7 (None-None) hybrid RTX-2 construct (amino acids 1132-1303 and 1562-1681 of CyaA)
hybrid RTX-2 construct (amino acids 1132-1303 and 1562-1681 of CyaA) experimental SAS data
DAMMIF model
Sample: Hybrid RTX-2 construct (amino acids 1132-1303 and 1562-1681 of CyaA) monomer, 31 kDa Bordetella pertussis protein
Buffer: 10 mM Tris HCl, 150 mM NaCl, 10 mM CaCl₂, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Dec 1
Almost half of the RTX domain is dispensable for complement receptor 3 binding and cell-invasive activity of the adenylate cyclase toxin. J Biol Chem :100833 (2021)
Espinosa-Vinals CA, Masin J, Holubova J, Stanek O, Jurnecka D, Osicka R, Sebo P, Bumba L
RgGuinier 2.3 nm
Dmax 8.0 nm
VolumePorod 37 nm3

SASDL82 – Human acetylcholinesterase, apo

UniProt ID: P22303-1 (32-578) acetylcholinesterase

UniProt ID: P22303-1 (32-578) acetylcholinesterase
acetylcholinesteraseacetylcholinesterase experimental SAS data
OTHER model
Sample: Acetylcholinesterase dimer, 120 kDa Homo sapiens protein
Acetylcholinesterase monomer, 60 kDa Homo sapiens protein
Buffer: 50 mM Tris/HCl, 100 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL4-2, Stanford Synchrotron Radiation Lightsource (SSRL) on 2015 May 29
Covalent inhibition of hAChE by organophosphates causes homodimer dissociation through long-range allosteric effects. J Biol Chem :101007 (2021)
Blumenthal DK, Cheng X, Fajer M, Ho KY, Rohrer J, Gerlits O, Taylor P, Juneja P, Kovalevsky A, Radić Z
RgGuinier 3.9 nm
Dmax 13.0 nm
VolumePorod 162 nm3