Search

 
Advanced search  

27 hits found for benchmark

SASDA62 – bAmylase in PBS

Beta-amylase experimental SAS data
DAMMIF model
Sample: Beta-amylase tetramer, 224 kDa Ipomoea batatas protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 20
Standard proteins
Darja Ruskule
RgGuinier 4.2 nm
Dmax 12.7 nm
VolumePorod 214 nm3

SASDA92 – Catalase in PBS

Catalase experimental SAS data
PDB model
Sample: Catalase tetramer, 240 kDa Bos taurus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 17
Standard proteins
Darja Ruskule
RgGuinier 4.1 nm
Dmax 10.9 nm
VolumePorod 296 nm3

SASDAA2 – Conalbumin in PBS

Ovotransferrin experimental SAS data
DAMMIF model
Sample: Ovotransferrin monomer, 78 kDa Gallus gallus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 21
Standard proteins
Darja Ruskule
RgGuinier 3.8 nm
Dmax 11.0 nm
VolumePorod 117 nm3

SASDAB2 – Cytochrome c from equine heart

Cytochrome cHeme C experimental SAS data
PDB model
Sample: Cytochrome c monomer, 12 kDa Equus caballus protein
Heme C monomer, 1 kDa
Buffer: 25 mM HEPES, 100 mM NaCl, 3% v/v glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Apr 8
Standard proteins
Cy M Jeffries
RgGuinier 1.3 nm
Dmax 3.7 nm
VolumePorod 12 nm3

SASDAC2 – Lyz in Sodium Acetate

Lysozyme C experimental SAS data
CRYSOL model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 40 mM Sodium Acetate, pH: 3.8
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 21
Standard proteins
Darja Ruskule
RgGuinier 1.5 nm
Dmax 4.0 nm
VolumePorod 17 nm3

SASDAG2 – Lyz in Sodium Acetate

Lysozyme C experimental SAS data
GASBOR model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 40 mM Sodium Acetate, pH: 3.8
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 21
Standard proteins
Darja Ruskule
RgGuinier 1.5 nm
Dmax 4.0 nm
VolumePorod 21 nm3

SASDAH2 – Myo in PBS

Myoglobin experimental SAS data
CRYSOL model
Sample: Myoglobin monomer, 17 kDa Equus caballus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 20
Standard proteins
Darja Ruskule
RgGuinier 1.7 nm
Dmax 5.0 nm
VolumePorod 32 nm3

SASDAK2 – Myo in PBS

Myoglobin experimental SAS data
PDB model
Sample: Myoglobin monomer, 17 kDa Equus caballus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 20
Standard proteins
Darja Ruskule
RgGuinier 1.6 nm
Dmax 5.0 nm
VolumePorod 32 nm3

SASDCK2 – Glucose Isomerase - Streptomyces rubiginosus

Xylose isomerase experimental SAS data
DAMMIN model
Sample: Xylose isomerase tetramer, 172 kDa Streptomyces rubiginosus protein
Buffer: 25 mM MOPS, 250 mM NaCl, 50 mM KCl, 2 mM TCEP, 0.1% NaN3, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2017 Mar 9
2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallogr D Struct Biol 73(Pt 9):710-728 (2017)
Trewhella J, Duff AP, Durand D, Gabel F, Guss JM, Hendrickson WA, Hura GL, Jacques DA, Kirby NM, Kwan AH, Pérez J, Pollack L, Ryan TM, Sali A, Schneidman-Duhovny D, Schwede T, Svergun DI, Sugiyama M, ...
RgGuinier 3.3 nm
Dmax 9.2 nm
VolumePorod 229 nm3

SASDAL2 – Ovalbumin in PBS

Ovalbumin experimental SAS data
DAMMIN model
Sample: Ovalbumin dimer, 86 kDa Gallus gallus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 18
Standard proteins
Darja Ruskule
RgGuinier 2.5 nm
Dmax 7.8 nm
VolumePorod 74 nm3

SASDAN2 – RNase in PBS

Ribonuclease pancreatic experimental SAS data
GASBOR model
Sample: Ribonuclease pancreatic monomer, 16 kDa Bos taurus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 18
Standard proteins
Darja Ruskule
RgGuinier 1.6 nm
Dmax 5.0 nm
VolumePorod 15 nm3

SASDAQ2 – Ubiquitin in sodium acetate

Ubiquitin experimental SAS data
PDB model
Sample: Ubiquitin monomer, 9 kDa Bos taurus protein
Buffer: 40 mM Sodium acetate 150 mM NaCl, pH: 5.5
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 18
Standard proteins
Darja Ruskule
RgGuinier 1.3 nm
Dmax 4.9 nm
VolumePorod 12 nm3

SASDCQ2 – 4Ca2+-calmodulin - Xenopus laevis

Calmodulin experimental SAS data
4Ca2+-calmodulin - Xenopus laevis Rg histogram
Sample: Calmodulin monomer, 17 kDa Xenopus laevis protein
Buffer: 25 mM MOPS, 250 mM NaCl, 50 mM KCl, 2 mM TCEP, 0.1% NaN3, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2017 Mar 9
2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallogr D Struct Biol 73(Pt 9):710-728 (2017)
Trewhella J, Duff AP, Durand D, Gabel F, Guss JM, Hendrickson WA, Hura GL, Jacques DA, Kirby NM, Kwan AH, Pérez J, Pollack L, Ryan TM, Sali A, Schneidman-Duhovny D, Schwede T, Svergun DI, Sugiyama M, ...
RgGuinier 2.2 nm
Dmax 7.2 nm
VolumePorod 25 nm3

SASDAR2 – RNase in PBS

Ribonuclease pancreatic experimental SAS data
DAMMIF model
Sample: Ribonuclease pancreatic monomer, 16 kDa Bos taurus protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Sep 18
Standard proteins
Darja Ruskule
RgGuinier 1.6 nm
Dmax 5.0 nm
VolumePorod 17 nm3

SASDCJ3 – Bovine Serum Albumin

Serum albumin experimental SAS data
DAMMIN model
Sample: Serum albumin monomer, 66 kDa Bos taurus protein
Buffer: 25 mM MOPS, 250 mM NaCl, 50 mM KCl, 2 mM TCEP, 0.1% NaN3, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2017 Mar 9
2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallogr D Struct Biol 73(Pt 9):710-728 (2017)
Trewhella J, Duff AP, Durand D, Gabel F, Guss JM, Hendrickson WA, Hura GL, Jacques DA, Kirby NM, Kwan AH, Pérez J, Pollack L, Ryan TM, Sali A, Schneidman-Duhovny D, Schwede T, Svergun DI, Sugiyama M, ...
RgGuinier 2.8 nm
Dmax 8.7 nm
VolumePorod 101 nm3

SASDA96 – Lysozyme

Lysozyme C experimental SAS data
DAMMIF model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 20 mM Sodium Acetate/HEPES, pH: 6.8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Feb 17
Correlation Map, a goodness-of-fit test for one-dimensional X-ray scattering spectra. Nat Methods 12(5):419-22 (2015)
Franke D, Jeffries CM, Svergun DI
RgGuinier 1.5 nm
Dmax 4.8 nm
VolumePorod 24 nm3

SASDAA6 – Human serum albumin monomer and mixtures

Human serum albumin monomer experimental SAS data
DAMMIF model
Sample: Human serum albumin monomer monomer, 66 kDa Homo sapiens protein
Buffer: 50 mM HEPES, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2014 Jan 22
Correlation Map, a goodness-of-fit test for one-dimensional X-ray scattering spectra. Nat Methods 12(5):419-22 (2015)
Franke D, Jeffries CM, Svergun DI
RgGuinier 2.8 nm
Dmax 8.4 nm
VolumePorod 103 nm3

SASDAB6 – Xylose Isomerase

Xylose Isomerase experimental SAS data
DAMMIF model
Sample: Xylose Isomerase tetramer, 173 kDa Streptomyces rubiginosus protein
Buffer: 20 mM HEPES 200 mM Na2SO4 50 mM K2SO4 500 % v/v D2O 1 mM MgCl2, pH: 6.6
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Dec 10
Correlation Map, a goodness-of-fit test for one-dimensional X-ray scattering spectra. Nat Methods 12(5):419-22 (2015)
Franke D, Jeffries CM, Svergun DI
RgGuinier 3.2 nm
Dmax 9.1 nm
VolumePorod 234 nm3

SASDAK6 – Glucose Isomerase

Xylose isomerase experimental SAS data
DAMMIF model
Sample: Xylose isomerase tetramer, 172 kDa Streptomyces rubiginosus protein
Buffer: PBS, 50% Glycerol, 0.076 M NaCl, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III on 2012 Apr 24
Standard proteins
Erica Valentini
RgGuinier 3.4 nm
Dmax 9.7 nm
VolumePorod 293 nm3

SASDFN8 – Apoferritin from horse spleen - SEC-SAXS coupled to multiangle laser and quasi-elastic light scattering (MALLS and QELS)

Apoferritin light chain experimental SAS data
DAMMIN model
Sample: Apoferritin light chain 24-mer, 479 kDa Equus caballus protein
Buffer: 50 mM HEPES, 150 mM NaCl, 2% v/v glycerol,, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Apr 5
SASBDB Standard Proteins
Melissa Graewert, Cy M Jeffries
RgGuinier 5.4 nm
Dmax 12.5 nm
VolumePorod 679 nm3

SASDFP8 – Carbonic anhydrase 2 from bovine erythrocytes - SEC-SAXS coupled to multiangle laser and quasi-elastic light scattering (MALLS and QELS)

Carbonic anhydrase 2 experimental SAS data
DAMMIN model
Sample: Carbonic anhydrase 2 monomer, 29 kDa Bos taurus protein
Buffer: 50 mM HEPES, 150 mM NaCl, 2% v/v glycerol,, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Apr 5
SASBDB Standard Proteins
Melissa Graewert, Cy M Jeffries
RgGuinier 1.8 nm
Dmax 5.1 nm
VolumePorod 37 nm3

SASDFQ8 – Bovine serum albumin, purified monomer - SEC-SAXS coupled to multiangle laser and quasi-elastic light scattering (MALLS and QELS)

Bovine serum albumin experimental SAS data
GASBOR model
Sample: Bovine serum albumin monomer, 66 kDa Bos taurus protein
Buffer: 50 mM HEPES, 150 mM NaCl, 2% v/v glycerol,, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Apr 5
SASBDB Standard Proteins
Melissa Graewert, Cy M Jeffries
RgGuinier 2.8 nm
Dmax 8.0 nm
VolumePorod 98 nm3

SASDFR8 – Bovine serum albumin, purified dimer - SEC-SAXS coupled to multiangle laser and quasi-elastic light scattering (MALLS and QELS)

Bovine serum albumin experimental SAS data
GASBOR model
Sample: Bovine serum albumin dimer, 133 kDa Bos taurus protein
Buffer: 50 mM HEPES, 150 mM NaCl, 2% v/v glycerol,, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Apr 5
SASBDB Standard Proteins
Melissa Graewert, Cy M Jeffries
RgGuinier 4.0 nm
Dmax 13.2 nm
VolumePorod 211 nm3

SASDFS8 – Yeast alcohol dehydrogenase 1 - SEC-SAXS coupled to multiangle laser and quasi-elastic light scattering (MALLS and QELS)

Alcohol dehydrogenase 1 experimental SAS data
DAMMIN model
Sample: Alcohol dehydrogenase 1 tetramer, 147 kDa Saccharomyces cerevisiae (strain … protein
Buffer: 50 mM HEPES, 150 mM NaCl, 2% v/v glycerol,, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Apr 5
SASBDB Standard Proteins
Melissa Graewert, Cy M Jeffries
RgGuinier 3.3 nm
Dmax 9.3 nm
VolumePorod 201 nm3

SASDF99 – Bovine serum albumin monomer - SEC-SAXS/WAXS coupled to multiangle laser and quasi-elastic light scattering (MALLS and QELS)

Bovine serum albumin experimental SAS data
GASBOR model
Sample: Bovine serum albumin monomer, 66 kDa Bos taurus protein
Buffer: 50 mM HEPES, 3% v/v glycerol,, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 Apr 23
SASBDB Standard Proteins
Melissa Graewert, Cy M Jeffries
RgGuinier 2.8 nm
Dmax 8.3 nm
VolumePorod 95 nm3

SASDAA8 – Chymotrypsinogen A in Tris/HCl

Chymotrypsinogen A experimental SAS data
CRYSOL model
Sample: Chymotrypsinogen A monomer, 26 kDa Bos taurus protein
Buffer: 100 mM Tris/HCl 100 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL X33, DORIS III on 2006 May 19
Accuracy of molecular mass determination of proteins in solution by small-angle X-ray scattering Journal of Applied Crystallography 40(s1):s245-s249 (2007)
Mylonas E, Svergun D
RgGuinier 1.9 nm
Dmax 5.0 nm

SASDA68 – Aldolase in Tris/HCl

Fructose-bisphosphate aldolase A experimental SAS data
PDB model
Sample: Fructose-bisphosphate aldolase A tetramer, 157 kDa Oryctolagus cuniculus protein
Buffer: 100 mM Tris/HCl 100 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL X33, DORIS III on 2006 May 19
Accuracy of molecular mass determination of proteins in solution by small-angle X-ray scattering Journal of Applied Crystallography 40(s1):s245-s249 (2007)
Mylonas E, Svergun D
RgGuinier 3.6 nm
Dmax 10.5 nm