Browse by MODEL: Ab initio only

SASDEF9 – TraI of Neisseria gonorrhoeae

TraI experimental SAS data
GASBOR model
Sample: TraI monomer, 91 kDa Neisseria gonorrhoeae protein
Buffer: 50 mM TRIS-HCl 100 mM NaCl, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2018 Mar 5
DNA processing by the MOBH family relaxase TraI encoded within the gonococcal genetic island. Nucleic Acids Res 47(15):8136-8153 (2019)
Heilers JH, Reiners J, Heller EM, Golzer A, Smits SHJ, van der Does C
RgGuinier 7.3 nm
Dmax 31.4 nm
VolumePorod 293 nm3

SASDFS3 – Murine transcription intermediary factor 1-beta, TRIM28 RBCC assembly-null mutation R184D

Transcription intermediary factor 1-beta experimental SAS data
GASBOR model
Sample: Transcription intermediary factor 1-beta dimer, 82 kDa Mus musculus protein
Buffer: 10 mM Tris 300 mM NaCl 0.1 mM TCEP, pH: 8
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2017 Aug 10
A Dissection of Oligomerisation by the TRIM28 Tripartite Motif and the Interaction with Members of the Krab-ZFP Family. J Mol Biol (2019)
Sun Y, Keown JR, Black MM, Raclot C, Demarais N, Trono D, Turelli P, Goldstone DC
RgGuinier 7.0 nm
Dmax 23.2 nm
VolumePorod 232 nm3

SASDFT3 – Murine transcription intermediary factor 1-beta, TRIM28 RBCC assembly-null mutation R184D, complexed with the Krab domain of ZFP809 fused to an N-terminal MBP

Transcription intermediary factor 1-betaZinc finger protein 809 N-terminal MBP fusion experimental SAS data
GASBOR model
Sample: Transcription intermediary factor 1-beta dimer, 82 kDa Mus musculus protein
Zinc finger protein 809 N-terminal MBP fusion monomer, 52 kDa Mus musculus protein
Buffer: 10 mM Tris 300 mM NaCl 0.1 mM TCEP, pH: 8
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2017 Aug 10
A Dissection of Oligomerisation by the TRIM28 Tripartite Motif and the Interaction with Members of the Krab-ZFP Family. J Mol Biol (2019)
Sun Y, Keown JR, Black MM, Raclot C, Demarais N, Trono D, Turelli P, Goldstone DC
RgGuinier 6.4 nm
Dmax 22.0 nm
VolumePorod 252 nm3

SASDF72 – roX2 RNA stem-loop 7 18mer-fragment

roX2 stem-loop 7, 18-mer fragment experimental SAS data
DAMMIN model
Sample: RoX2 stem-loop 7, 18-mer fragment monomer, 12 kDa synthetic construct RNA
Buffer: 20 mM NaPO4, 200 mM NaCl, 1 mM DTT, pH: 6.5
Experiment: SAXS data collected at BM29, ESRF on 2016 Nov 29
Structure, dynamics and roX2-lncRNA binding of tandem double-stranded RNA binding domains dsRBD1,2 of Drosophila helicase Maleless. Nucleic Acids Res 47(8):4319-4333 (2019)
Ankush Jagtap PK, Müller M, Masiewicz P, von Bülow S, Hollmann NM, Chen PC, Simon B, Thomae AW, Becker PB, Hennig J
RgGuinier 1.8 nm
Dmax 8.5 nm
VolumePorod 14 nm3

SASDF82 – Urokinase plasminogen activator surface receptor, uPAR H47C-N259C, complex with urokinase-type plasminogen activator (Amino Terminal Fragment, ATF).

Urokinase plasminogen activator surface receptorUrokinase-type plasminogen activator (Amino Terminal Fragment) experimental SAS data
DAMMIN model
Sample: Urokinase plasminogen activator surface receptor monomer, 37 kDa Homo sapiens protein
Urokinase-type plasminogen activator (Amino Terminal Fragment) monomer, 16 kDa Homo sapiens protein
Buffer: 20 mM PBS, 5 %(v/v) glycerol, 50 mM NaSO4,, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III, DESY on 2011 Jun 18
Did evolution create a flexible ligand-binding cavity in the urokinase receptor through deletion of a plesiotypic disulfide bond? J Biol Chem (2019)
Leth JM, Mertens HDT, Leth-Espensen KZ, Jørgensen TJD, Ploug M
RgGuinier 2.6 nm
Dmax 8.2 nm
VolumePorod 102 nm3

SASDF92 – Urokinase plasminogen activator surface receptor, uPAR, T51C-V70C

Urokinase plasminogen activator surface receptor experimental SAS data
DAMMIN model
Sample: Urokinase plasminogen activator surface receptor monomer, 37 kDa Homo sapiens protein
Buffer: 20 mM PBS, 5 %(v/v) glycerol, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 Dec 1
Did evolution create a flexible ligand-binding cavity in the urokinase receptor through deletion of a plesiotypic disulfide bond? J Biol Chem (2019)
Leth JM, Mertens HDT, Leth-Espensen KZ, Jørgensen TJD, Ploug M
RgGuinier 2.5 nm
Dmax 8.9 nm
VolumePorod 55 nm3

SASDFA2 – Urokinase plasminogen activator surface receptor, uPAR T51C-V70C, complex with urokinase-type plasminogen activator (Amino Terminal Fragment, ATF).

Urokinase plasminogen activator surface receptorUrokinase-type plasminogen activator (Amino Terminal Fragment) experimental SAS data
DAMMIN model
Sample: Urokinase plasminogen activator surface receptor monomer, 37 kDa Homo sapiens protein
Urokinase-type plasminogen activator (Amino Terminal Fragment) monomer, 16 kDa Homo sapiens protein
Buffer: 20 mM PBS, 5 %(v/v) glycerol, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 Dec 1
Did evolution create a flexible ligand-binding cavity in the urokinase receptor through deletion of a plesiotypic disulfide bond? J Biol Chem (2019)
Leth JM, Mertens HDT, Leth-Espensen KZ, Jørgensen TJD, Ploug M
RgGuinier 2.6 nm
Dmax 8.5 nm
VolumePorod 77 nm3

SASDFB2 – Urokinase plasminogen activator surface receptor, uPAR, K50C-V70C

Urokinase plasminogen activator surface receptor experimental SAS data
DAMMIN model
Sample: Urokinase plasminogen activator surface receptor monomer, 37 kDa Homo sapiens protein
Buffer: 20 mM PBS, 5 %(v/v) glycerol, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 May 5
Did evolution create a flexible ligand-binding cavity in the urokinase receptor through deletion of a plesiotypic disulfide bond? J Biol Chem (2019)
Leth JM, Mertens HDT, Leth-Espensen KZ, Jørgensen TJD, Ploug M
RgGuinier 2.5 nm
Dmax 9.3 nm
VolumePorod 66 nm3

SASDFC2 – Urokinase plasminogen activator surface receptor, uPAR K50C-V70C, complex with urokinase-type plasminogen activator (Amino Terminal Fragment, ATF).

Urokinase plasminogen activator surface receptorUrokinase-type plasminogen activator (Amino Terminal Fragment) experimental SAS data
DAMMIN model
Sample: Urokinase plasminogen activator surface receptor monomer, 37 kDa Homo sapiens protein
Urokinase-type plasminogen activator (Amino Terminal Fragment) monomer, 16 kDa Homo sapiens protein
Buffer: 20 mM PBS, 5 %(v/v) glycerol, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 May 5
Did evolution create a flexible ligand-binding cavity in the urokinase receptor through deletion of a plesiotypic disulfide bond? J Biol Chem (2019)
Leth JM, Mertens HDT, Leth-Espensen KZ, Jørgensen TJD, Ploug M
RgGuinier 2.6 nm
Dmax 9.0 nm
VolumePorod 66 nm3

SASDET9 – Gliding motility protein MglB: A GAP of Myxococcus xanthus MglA

Gliding motility protein MglB experimental SAS data
GASBOR model
Sample: Gliding motility protein MglB dimer, 34 kDa Myxococcus xanthus protein
Buffer: 150 mM NaCl, 1 mM DTT, 20 mM Tris-HCl, pH: 8
Experiment: SAXS data collected at SWING, SOLEIL on 2017 Oct 9
MglA functions as a three-state GTPase to control movement reversals of Myxococcus xanthus. Nat Commun 10(1):5300 (2019)
Galicia C, Lhospice S, Varela PF, Trapani S, Zhang W, Navaza J, Herrou J, Mignot T, Cherfils J
RgGuinier 2.8 nm
Dmax 10.3 nm
VolumePorod 56 nm3