Browse by MODEL: Ab initio only

SASDED8 – Poly-L-Glutamic Acid in Dimethyl Sulfoxide (DMSO)

Poly-L-Glutamic Acid experimental SAS data
PYMOL model
Sample: Poly-L-Glutamic Acid, 6 kDa
Buffer: Dimethyl Sulfoxide (DMSO), pH:
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 Dec 11
β2-Type Amyloidlike Fibrils of Poly-l-glutamic Acid Convert into Long, Highly Ordered Helices upon Dissolution in Dimethyl Sulfoxide. J Phys Chem B 122(50):11895-11905 (2018)
Berbeć S, Dec R, Molodenskiy D, Wielgus-Kutrowska B, Johannessen C, Hernik-Magoń A, Tobias F, Bzowska A, Ścibisz G, Keiderling TA, Svergun D, Dzwolak W
RgGuinier 1.8 nm
Dmax 7.8 nm
VolumePorod 5 nm3

SASDEF6 – Epstein-Barr nuclear antigen 2 (EBNA2 Type1, amino acids 381-455)

Epstein-Barr nuclear antigen 2 experimental SAS data
DAMMIN model
Sample: Epstein-Barr nuclear antigen 2 dimer, 16 kDa Human gammaherpesvirus 4 protein
Buffer: 20mM Tris-HCl, 100mM NaCl, 2% Sucrose and 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Sep 23
Increased association between Epstein-Barr virus EBNA2 from type 2 strains and the transcriptional repressor BS69 restricts B cell growth (2018)
Ponnusamy R, Khatri R, Correia P, Mancini E, Farrell P, West M
RgGuinier 2.7 nm
Dmax 9.3 nm
VolumePorod 19 nm3

SASDEG6 – Epstein-Barr nuclear antigen 2 (EBNA2 Type2, amino acids 348-422)

Epstein-Barr nuclear antigen 2 experimental SAS data
DAMMIN model
Sample: Epstein-Barr nuclear antigen 2 dimer, 16 kDa Human gammaherpesvirus 4 protein
Buffer: 20mM Tris-HCl, 100mM NaCl, 2% Sucrose and 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Sep 23
Increased association between Epstein-Barr virus EBNA2 from type 2 strains and the transcriptional repressor BS69 restricts B cell growth (2018)
Ponnusamy R, Khatri R, Correia P, Mancini E, Farrell P, West M
RgGuinier 2.8 nm
Dmax 10.4 nm
VolumePorod 20 nm3

SASDEH6 – BS69 (CC-MYND: Zinc finger MYND domain-containing protein 11, amino acids 480-602)

Zinc finger MYND domain-containing protein 11 experimental SAS data
DAMMIN model
Sample: Zinc finger MYND domain-containing protein 11 tetramer, 60 kDa Homo sapiens protein
Buffer: 20mM Tris-HCl, 100mM NaCl, 2% Sucrose and 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Sep 23
Increased association between Epstein-Barr virus EBNA2 from type 2 strains and the transcriptional repressor BS69 restricts B cell growth (2018)
Ponnusamy R, Khatri R, Correia P, Mancini E, Farrell P, West M
RgGuinier 5.3 nm
Dmax 16.9 nm
VolumePorod 83 nm3

SASDEJ6 – Complex of Epstein-Barr nuclear antigen 2 (EBNA2 Type1, amino acids 381-455) and BS69 (Zinc finger MYND domain-containing protein 11: CC-MYND, amino acids 480-602)

Epstein-Barr nuclear antigen 2Zinc finger MYND domain-containing protein 11 experimental SAS data
DAMMIN model
Sample: Epstein-Barr nuclear antigen 2 dimer, 16 kDa Human gammaherpesvirus 4 protein
Zinc finger MYND domain-containing protein 11 tetramer, 60 kDa Homo sapiens protein
Buffer: 20mM Tris-HCl, 100mM NaCl, 2% Sucrose and 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Nov 29
Increased association between Epstein-Barr virus EBNA2 from type 2 strains and the transcriptional repressor BS69 restricts B cell growth (2018)
Ponnusamy R, Khatri R, Correia P, Mancini E, Farrell P, West M
RgGuinier 4.6 nm
Dmax 13.8 nm
VolumePorod 72 nm3

SASDEK6 – Complex of Epstein-Barr nuclear antigen 2 (EBNA2 Type2, amino acids 348-422) and BS69 (Zinc finger MYND domain-containing protein 11: CC-MYND, amino acids 480-602)

Epstein-Barr nuclear antigen 2Zinc finger MYND domain-containing protein 11 experimental SAS data
DAMMIN model
Sample: Epstein-Barr nuclear antigen 2 dimer, 16 kDa Human gammaherpesvirus 4 protein
Zinc finger MYND domain-containing protein 11 hexamer, 90 kDa Homo sapiens protein
Buffer: 20mM Tris-HCl, 100mM NaCl, 2% Sucrose and 1mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Sep 23
Increased association between Epstein-Barr virus EBNA2 from type 2 strains and the transcriptional repressor BS69 restricts B cell growth (2018)
Ponnusamy R, Khatri R, Correia P, Mancini E, Farrell P, West M
RgGuinier 4.7 nm
Dmax 14.5 nm
VolumePorod 239 nm3

SASDD32 – DNA-(adenine N6)-methyltransferase from Acinetobacter baumannii ATCC 17978

DNA-(adenine N6)-methyltransferase experimental SAS data
DAMMIN model
Sample: DNA-(adenine N6)-methyltransferase monomer, 49 kDa Acinetobacter baumannii protein
Buffer: 150mM NaCl, 10mM Tris, 1mM DTT, 5% v/v glycerol, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Sep 30
Recombinant production of A1S_0222 from Acinetobacter baumannii ATCC 17978 and confirmation of its DNA-(adenine N6)-methyltransferase activity. Protein Expr Purif 151:78-85 (2018)
Blaschke U, Suwono B, Zafari S, Ebersberger I, Skiebe E, Jeffries CM, Svergun DI, Wilharm G
RgGuinier 2.9 nm
Dmax 11.1 nm
VolumePorod 96 nm3

SASDC75 – Leishmania braziliensis SGT co-chaperone

SGT protein experimental SAS data
DAMFILT model
Sample: SGT protein dimer, 92 kDa Leishmania braziliensis protein
Buffer: 20 mM Potassium Phosphate, 100 mM KCl, 10 mM EDTA, 1 mM B-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at SAXS2 Beamline, Brazilian Synchrotron Light Laboratory on 2014 May 14
Structural and functional studies of the Leishmania braziliensis SGT co-chaperone indicate that it shares structural features with HIP and can interact with both Hsp90 and Hsp70 with similar affinities. Int J Biol Macromol 118(Pt A):693-706 (2018)
Coto ALS, Seraphim TV, Batista FAH, Dores-Silva PR, Barranco ABF, Teixeira FR, Gava LM, Borges JC
RgGuinier 4.5 nm
Dmax 17.0 nm

SASDDM6 – Calbindin-D28K

Calbindin experimental SAS data
DAMMIF model
Sample: Calbindin monomer, 30 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150mM NaCl, pH: 7.8
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Feb 28
The X-ray structure of human calbindin-D28K: an improved model. Acta Crystallogr D Struct Biol 74(Pt 10):1008-1014 (2018)
Noble JW, Almalki R, Roe SM, Wagner A, Duman R, Atack JR
RgGuinier 2.1 nm
Dmax 7.0 nm
VolumePorod 46 nm3

SASDC44 – Envelope of Col H PKD-CBD complexed with mini-collagen

ColH proteinCollagenous Peptide model [(PPG)10] experimental SAS data
DAMMIF model
Sample: ColH protein monomer, 24 kDa Hathewaya histolytica protein
Collagenous Peptide model [(PPG)10] trimer, 9 kDa synthetic construct protein
Buffer: 50 mM HEPES, 100 mM NaCl, 5 mM CaCl2, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2016 Oct 12
Ca2+ -induced orientation of tandem collagen binding domains from clostridial collagenase ColG permits two opposing functions of collagen fibril formation and retardation. FEBS J 285(17):3254-3269 (2018)
Caviness P, Bauer R, Tanaka K, Janowska K, Roeser JR, Harter D, Sanders J, Ruth C, Matsushita O, Sakon J
RgGuinier 2.7 nm
Dmax 12.0 nm
VolumePorod 28 nm3