Browse by MODEL: Hybrid

SASDAZ7 – IL-6R AIR-3A 2:4 complex

AIR-3AInterleukin-6 receptor subunit alpha experimental SAS data
DAMMIF model
Sample: AIR-3A tetramer, 26 kDa RNA
Interleukin-6 receptor subunit alpha dimer, 82 kDa Homo sapiens protein
Buffer: water, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2014 Oct 1
Structure and target interaction of a G-quadruplex RNA-aptamer. RNA Biol 13(10):973-987 (2016)
Szameit K, Berg K, Kruspe S, Valentini E, Magbanua E, Kwiatkowski M, Chauvot de Beauchêne I, Krichel B, Schamoni K, Uetrecht C, Svergun DI, Schlüter H, Zacharias M, Hahn U
RgGuinier 6.7 nm
Dmax 25.0 nm
VolumePorod 150 nm3

SASDBZ4 – Tyrosine hydroxylase (Isoform 1, Homo sapiens)

Tyrosine hydroxylase, isoform 1 experimental SAS data
BUNCH model
Sample: Tyrosine hydroxylase, isoform 1 tetramer, 222 kDa Homo sapiens protein
Buffer: 20 mM Na-HEPES 200 mM NaCl, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 14
Stable preparations of tyrosine hydroxylase provide the solution structure of the full-length enzyme. Sci Rep 6:30390 (2016)
Bezem MT, Baumann A, Skjærven L, Meyer R, Kursula P, Martinez A, Flydal MI
RgGuinier 4.7 nm
Dmax 20.0 nm
VolumePorod 520 nm3

SASDBV4 – Vaccinia virus MVA F1L antiapoptotic Bcl-2 viral protein

MVA F1L antiapoptotic Bcl-2 viral protein experimental SAS data
BUNCH model
Sample: MVA F1L antiapoptotic Bcl-2 viral protein dimer, 51 kDa Vaccinia virus protein
Buffer: 25 mM HEPES 150 mM NaCl 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2016 Apr 15
The N Terminus of the Vaccinia Virus Protein F1L Is an Intrinsically Unstructured Region That Is Not Involved in Apoptosis Regulation. J Biol Chem 291(28):14600-8 (2016)
Caria S, Marshall B, Burton RL, Campbell S, Pantaki-Eimany D, Hawkins CJ, Barry M, Kvansakul M
RgGuinier 3.4 nm
Dmax 16.2 nm
VolumePorod 74 nm3

SASDB52 – Death associated protein kinase (wild-type)

Death associated protein kinase wild-type experimental SAS data
NONE model
Sample: Death associated protein kinase wild-type, 37 kDa Homo sapiens protein
Buffer: 50 mM HEPES 250 mM NaCl 5mM CaCl2 0.25 mM TCEP 5% (v/v) glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Dec 18
Death-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites. Structure 24(6):851-61 (2016)
Simon B, Huart AS, Temmerman K, Vahokoski J, Mertens HD, Komadina D, Hoffmann JE, Yumerefendi H, Svergun DI, Kursula P, Schultz C, McCarthy AA, Hart DJ, Wilmanns M
RgGuinier 2.7 nm
Dmax 8.1 nm
VolumePorod 101 nm3

SASDB62 – Death associated protein kinase (D220K mutant)

Death associated protein kinase (D220K mutant) experimental SAS data
NONE model
Sample: Death associated protein kinase (D220K mutant), 37 kDa Homo sapiens protein
Buffer: 50 mM HEPES 250 mM NaCl 5mM CaCl2 0.25 mM TCEP 5% (v/v) glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Dec 18
Death-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites. Structure 24(6):851-61 (2016)
Simon B, Huart AS, Temmerman K, Vahokoski J, Mertens HD, Komadina D, Hoffmann JE, Yumerefendi H, Svergun DI, Kursula P, Schultz C, McCarthy AA, Hart DJ, Wilmanns M
RgGuinier 2.5 nm
Dmax 9.0 nm
VolumePorod 89 nm3

SASDB72 – Death associated protein kinase (Basic Loop mutant)

Death associated protein kinase (Basic Loop mutant) experimental SAS data
NONE model
Sample: Death associated protein kinase (Basic Loop mutant), 37 kDa Homo sapiens protein
Buffer: 50 mM HEPES 250 mM NaCl 5mM CaCl2 0.25 mM TCEP 5% (v/v) glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Dec 18
Death-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites. Structure 24(6):851-61 (2016)
Simon B, Huart AS, Temmerman K, Vahokoski J, Mertens HD, Komadina D, Hoffmann JE, Yumerefendi H, Svergun DI, Kursula P, Schultz C, McCarthy AA, Hart DJ, Wilmanns M
RgGuinier 2.4 nm
Dmax 7.5 nm
VolumePorod 78 nm3

SASDAU8 – Immunosuppressive virulence protein YopM

Yersinia outer protein M (34-481) experimental SAS data
SASREF model
Sample: Yersinia outer protein M (34-481) dimer, 101 kDa Yersinia enterocolitica protein
Buffer: 50 mM HEPES 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Nov 13
Immunosuppressive Yersinia Effector YopM Binds DEAD Box Helicase DDX3 to Control Ribosomal S6 Kinase in the Nucleus of Host Cells. PLoS Pathog 12(6):e1005660 (2016)
Berneking L, Schnapp M, Rumm A, Trasak C, Ruckdeschel K, Alawi M, Grundhoff A, Kikhney AG, Koch-Nolte F, Buck F, Perbandt M, Betzel C, Svergun DI, Hentschke M, Aepfelbacher M
RgGuinier 3.9 nm
Dmax 11.5 nm
VolumePorod 154 nm3

SASDAV8 – DEAD box helicase DDX3

DEAD box RNA helicase DDX3 (51-418) experimental SAS data
SASREF model
Sample: DEAD box RNA helicase DDX3 (51-418) monomer, 42 kDa Yersinia enterocolitica protein
Buffer: 50 mM HEPES 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Nov 13
Immunosuppressive Yersinia Effector YopM Binds DEAD Box Helicase DDX3 to Control Ribosomal S6 Kinase in the Nucleus of Host Cells. PLoS Pathog 12(6):e1005660 (2016)
Berneking L, Schnapp M, Rumm A, Trasak C, Ruckdeschel K, Alawi M, Grundhoff A, Kikhney AG, Koch-Nolte F, Buck F, Perbandt M, Betzel C, Svergun DI, Hentschke M, Aepfelbacher M
RgGuinier 2.8 nm
Dmax 12.0 nm
VolumePorod 80 nm3

SASDAW8 – 2:1 YopM:DDX3 complex

Yersinia outer protein M (34-481)DEAD box RNA helicase DDX3 (51-418) experimental SAS data
SASREF model
Sample: Yersinia outer protein M (34-481) dimer, 101 kDa Yersinia enterocolitica protein
DEAD box RNA helicase DDX3 (51-418) monomer, 42 kDa Yersinia enterocolitica protein
Buffer: 50 mM HEPES 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Jun 14
Immunosuppressive Yersinia Effector YopM Binds DEAD Box Helicase DDX3 to Control Ribosomal S6 Kinase in the Nucleus of Host Cells. PLoS Pathog 12(6):e1005660 (2016)
Berneking L, Schnapp M, Rumm A, Trasak C, Ruckdeschel K, Alawi M, Grundhoff A, Kikhney AG, Koch-Nolte F, Buck F, Perbandt M, Betzel C, Svergun DI, Hentschke M, Aepfelbacher M
RgGuinier 4.0 nm
Dmax 15.0 nm
VolumePorod 190 nm3

SASDBR3 – Wild type RNF8 complexed with Ubc13 (C87K, K92A mutant): conjugated to Ubiquitin

E3 ubiquitin-protein ligase RNF8Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A)Polyubiquitin-C experimental SAS data
MES-FOXS model
Sample: E3 ubiquitin-protein ligase RNF8 dimer, 35 kDa Homo sapiens protein
Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A) dimer, 36 kDa Homo sapiens protein
Polyubiquitin-C dimer, 17 kDa Homo sapiens protein
Buffer: 20 mM HEPES 200 mM NaCl 0.01 mM ZnSO4 1 mM DTT, pH: 6.8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2015 Sep 8
RNF8 E3 Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. J Biol Chem 291(18):9396-410 (2016)
Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer JA, Hendzel MJ, Glover JN
RgGuinier 4.5 nm
Dmax 18.9 nm
VolumePorod 119 nm3