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18 hits found for Shkumatov

SASDDY2 – Leucine-rich repeat and fibronectin type-III domain-containing protein 4: Fragment SALM3 LRR-Ig

Leucine-rich repeat and fibronectin type-III domain-containing protein 4 experimental SAS data
Leucine-rich repeat and fibronectin type-III domain-containing protein 4: Fragment SALM3 LRR-Ig Rg histogram
Sample: Leucine-rich repeat and fibronectin type-III domain-containing protein 4 dimer, 79 kDa Mus musculus protein
Buffer: 20 mM Tris HCl, 100 mM NaCl, 0.02% NaN3,, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2017 Jul 13
The structure of SALM5 suggests a dimeric assembly for the presynaptic RPTP ligand recognition. Protein Eng Des Sel (2018)
...Shkumatov AV, Kajander T
RgGuinier 3.7 nm
Dmax 12.1 nm
VolumePorod 183 nm3

SASDDZ2 – Leucine-rich repeat and fibronectin type-III domain-containing protein 4: Fragment SALM3 LRR-Ig-Fn

Leucine-rich repeat and fibronectin type-III domain-containing protein 4 experimental SAS data
Leucine-rich repeat and fibronectin type-III domain-containing protein 4: Fragment SALM3 LRR-Ig-Fn Rg histogram
Sample: Leucine-rich repeat and fibronectin type-III domain-containing protein 4 dimer, 109 kDa Mus musculus protein
Buffer: 20 mM Tris HCl, 100 mM NaCl, 0.02% NaN3,, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2017 Mar 11
The structure of SALM5 suggests a dimeric assembly for the presynaptic RPTP ligand recognition. Protein Eng Des Sel (2018)
...Shkumatov AV, Kajander T
RgGuinier 4.8 nm
Dmax 17.1 nm
VolumePorod 313 nm3

SASDD23 – Leucine-rich repeat and fibronectin type-III domain-containing protein 5: Fragment SALM5 LRR-Ig

Leucine-rich repeat and fibronectin type-III domain-containing protein 5 experimental SAS data
Leucine-rich repeat and fibronectin type-III domain-containing protein 5: Fragment SALM5 LRR-Ig Rg histogram
Sample: Leucine-rich repeat and fibronectin type-III domain-containing protein 5 dimer, 82 kDa Mus musculus protein
Buffer: 30 mM Tris-Cl, 150 mM NaCl, 3% glycerol, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2016 Jun 8
The structure of SALM5 suggests a dimeric assembly for the presynaptic RPTP ligand recognition. Protein Eng Des Sel (2018)
...Shkumatov AV, Kajander T
RgGuinier 3.6 nm
Dmax 13.5 nm
VolumePorod 155 nm3

SASDBG3 – Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)

Mouse Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct) experimental SAS data
DAMMIN model
Sample: Mouse Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct) monomer, 40 kDa Mus musculus protein
Buffer: 20 mM Tris 150 mM NaCl 3% glycerol, pH: 7.4
Experiment: SAXS data collected at ID14-3, ESRF on 2015 Sep 27
Crystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding. Biochemistry 55(6):914-26 (2016)
...Shkumatov AV, Sele C, Brunello C, Kysenius K, Singha P, Jokinen V, Huttunen H, Kajander T
RgGuinier 3.3 nm
Dmax 13.1 nm

SASDBH3 – Leucine-rich repeat transmembrane neuronal protein 2, LRRTM2 (fragment 30-380)

Mouse Leucine-rich repeat transmembrane neuronal protein 2, LRRTM2 experimental SAS data
DAMMIN model
Sample: Mouse Leucine-rich repeat transmembrane neuronal protein 2, LRRTM2 dimer, 80 kDa Mus musculus protein
Buffer: 20 mM Tris 150 mM NaCl 3% glycerol, pH: 7.4
Experiment: SAXS data collected at ID14-3, ESRF on 2015 Jun 28
Crystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding. Biochemistry 55(6):914-26 (2016)
...Shkumatov AV, Sele C, Brunello C, Kysenius K, Singha P, Jokinen V, Huttunen H, Kajander T
RgGuinier 4.2 nm
Dmax 21.6 nm

SASDCY4 – RNase E 603-850

RNase E 603-850 experimental SAS data
RNase E 603-850 Rg histogram
Sample: RNase E 603-850 monomer, 30 kDa Escherichia coli protein
Buffer: 50 mM Tris HCl, 100 mM NaCl, 100 mM KCl, 10 mM MgCl2, 10 mM DTT and 5 % glycerol (v/v), pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2014 Dec 5
Analysis of the natively unstructured RNA/protein-recognition core in the Escherichia coli RNA degradosome and its interactions with regulatory RNA/Hfq complexes. Nucleic Acids Res 46(1):387-402 (2018)
...Shkumatov AV, Luisi BF
RgGuinier 5.3 nm
Dmax 27.5 nm
VolumePorod 139 nm3

SASDCZ4 – RNase E 603-850/ATP-dependent RNA helicase (RhlB) binary complex

RNase E 603-850ATP-dependent RNA helicase RhlB experimental SAS data
GASBOR model
Sample: RNase E 603-850 monomer, 30 kDa Escherichia coli protein
ATP-dependent RNA helicase RhlB monomer, 47 kDa Escherichia coli protein
Buffer: 50 mM Tris HCl, 100 mM NaCl, 100 mM KCl, 10 mM MgCl2, 10 mM DTT and 5 % glycerol (v/v), pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2016 Feb 11
Analysis of the natively unstructured RNA/protein-recognition core in the Escherichia coli RNA degradosome and its interactions with regulatory RNA/Hfq complexes. Nucleic Acids Res 46(1):387-402 (2018)
...Shkumatov AV, Luisi BF
RgGuinier 5.4 nm
Dmax 29.5 nm
VolumePorod 183 nm3

SASDC25 – RNase E 603-850/ATP-dependent RNA helicase (RhlB)/enolase ternary complex

RNase E 603-850ATP-dependent RNA helicase RhlBEnolase experimental SAS data
GASBOR model
Sample: RNase E 603-850 monomer, 30 kDa Escherichia coli protein
ATP-dependent RNA helicase RhlB monomer, 47 kDa Escherichia coli protein
Enolase dimer, 91 kDa Escherichia coli protein
Buffer: 50 mM Tris HCl, 100 mM NaCl, 100 mM KCl, 10 mM MgCl2, 10 mM DTT and 5 % glycerol (v/v), pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2014 Jul 16
Analysis of the natively unstructured RNA/protein-recognition core in the Escherichia coli RNA degradosome and its interactions with regulatory RNA/Hfq complexes. Nucleic Acids Res 46(1):387-402 (2018)
...Shkumatov AV, Luisi BF
RgGuinier 6.4 nm
Dmax 30.5 nm
VolumePorod 280 nm3

SASDMR5 – Tn3 family transposase (TnpA WT)

TnpA transposase experimental SAS data
GASBOR model
Sample: TnpA transposase dimer, 234 kDa Bacillus thuringiensis serovar … protein
Buffer: 50 mM HEPES, 200 mM NaCl, 100 mM L-Arg HCL, pH: 7.9
Experiment: SAXS data collected at SWING, SOLEIL on 2017 Nov 2
AFM-based force spectroscopy unravels stepwise formation of the DNA transposition complex in the widespread Tn3 family mobile genetic elements. Nucleic Acids Res (2023)
...Shkumatov AV, Liu Y, Stulemeijer C, Derclaye S, Efremov RG, Hallet B, Alsteens D
RgGuinier 4.6 nm
Dmax 16.0 nm
VolumePorod 480 nm3

SASDBS6 – Apo form of full length ObgE from E.coli (ObgE_FL)

GTPase ObgE/CgtA experimental SAS data
Apo form of full length ObgE from E.coli (ObgE_FL) Rg histogram
Sample: GTPase ObgE/CgtA monomer, 44 kDa Escherichia coli protein
Buffer: 20 mM Hepes , 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2015 Jun 17
Structural and biochemical analysis of Escherichia coli ObgE, a central regulator of bacterial persistence. J Biol Chem 292(14):5871-5883 (2017)
...Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W
RgGuinier 3.7 nm
Dmax 18.1 nm
VolumePorod 102 nm3

SASDBT6 – GppNHp bound form of full length ObgE from E.coli (ObgE_FL with GppNHp)

GTPase ObgE/CgtA experimental SAS data
DAMMIN model
Sample: GTPase ObgE/CgtA monomer, 44 kDa Escherichia coli protein
Buffer: 20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 µM GppNHp, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2015 Jun 17
Structural and biochemical analysis of Escherichia coli ObgE, a central regulator of bacterial persistence. J Biol Chem 292(14):5871-5883 (2017)
...Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W
RgGuinier 3.7 nm
Dmax 14.5 nm
VolumePorod 90 nm3

SASDBU6 – Apo form of the C-terminal deletion mutant of ObgE from E.coli (ObgE_340)

GTPase ObgE/CgtA experimental SAS data
Apo form of the C-terminal deletion mutant of ObgE from E.coli (ObgE_340) Rg histogram
Sample: GTPase ObgE/CgtA monomer, 39 kDa Escherichia coli protein
Buffer: 20 mM Hepes , 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2015 Mar 12
Structural and biochemical analysis of Escherichia coli ObgE, a central regulator of bacterial persistence. J Biol Chem 292(14):5871-5883 (2017)
...Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W
RgGuinier 3.1 nm
Dmax 11.6 nm
VolumePorod 70 nm3

SASDBV6 – GppNHp bound form of C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GppNHp)

GTPase ObgE/CgtA experimental SAS data
DAMMIN model
Sample: GTPase ObgE/CgtA monomer, 39 kDa Escherichia coli protein
Buffer: 20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 µM GppNHp, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2015 Mar 12
Structural and biochemical analysis of Escherichia coli ObgE, a central regulator of bacterial persistence. J Biol Chem 292(14):5871-5883 (2017)
...Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W
RgGuinier 3.1 nm
Dmax 11.4 nm
VolumePorod 72 nm3

SASDBB9 – GDP bound form of full length ObgE from E.coli (ObgE_FL with GDP)

GTPase ObgE/CgtA experimental SAS data
DAMMIN model
Sample: GTPase ObgE/CgtA monomer, 44 kDa Escherichia coli protein
Buffer: 20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 uM GDP, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2015 Jun 17
Structural and biochemical analysis of Escherichia coli ObgE, a central regulator of bacterial persistence. J Biol Chem 292(14):5871-5883 (2017)
...Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W
RgGuinier 3.5 nm
Dmax 16.0 nm
VolumePorod 94673 nm3

SASDBC9 – GDP bound form of C-terminal deletion mutant of ObgE from E.coli (ObgE_340 with GDP)

GTPase ObgE/CgtA experimental SAS data
DAMMIN model
Sample: GTPase ObgE/CgtA monomer, 39 kDa Escherichia coli protein
Buffer: 20 mM Hepes, 300 mM NaCl, 250 mM imidazole, 5 mM MgCl2, 2 mM DTT, 400 uM GDP, pH: 7.5
Experiment: SAXS data collected at Rigaku BioSAXS-2000, on 2015 Feb 1
Structural and biochemical analysis of Escherichia coli ObgE, a central regulator of bacterial persistence. J Biol Chem 292(14):5871-5883 (2017)
...Shkumatov AV, Messens J, Fauvart M, Verstraeten N, Michiels J, Versées W
RgGuinier 3.0 nm
Dmax 11.0 nm
VolumePorod 70673 nm3

SASDAA9 – EcPaaA2-EcParE2His construct

Plasmid stabilization protein ParE Uncharacterized protein (Antitoxin) experimental SAS data
CRYSOL model
Sample: Plasmid stabilization protein ParE 16-mer, 188 kDa Escherichia coli protein
Uncharacterized protein (Antitoxin) 16-mer, 135 kDa Escherichia coli protein
Buffer: 50 mM Tris-HCl 500 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2014 Dec 9
A unique hetero-hexadecameric architecture displayed by the Escherichia coli O157 PaaA2-ParE2 antitoxin-toxin complex. J Mol Biol 428(8):1589-603 (2016)
...Shkumatov AV, Garcia-Pino A, Geerts L, De Kerpel M, Lah J, De Greve H, Van Melderen L, Loris R
RgGuinier 3.8 nm
Dmax 16.2 nm
VolumePorod 312 nm3

SASDAB9 – EcPaaA2-HisEcParE2 construct

Plasmid stabilization protein ParEUncharacterized protein (Antitoxin) experimental SAS data
CRYSOL model
Sample: Plasmid stabilization protein ParE octamer, 102 kDa Escherichia coli protein
Uncharacterized protein (Antitoxin) octamer, 68 kDa Escherichia coli protein
Buffer: 50 mM Tris-HCl 500 mM NaCl, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2012 Feb 5
A unique hetero-hexadecameric architecture displayed by the Escherichia coli O157 PaaA2-ParE2 antitoxin-toxin complex. J Mol Biol 428(8):1589-603 (2016)
...Shkumatov AV, Garcia-Pino A, Geerts L, De Kerpel M, Lah J, De Greve H, Van Melderen L, Loris R
RgGuinier 3.3 nm
Dmax 15.3 nm
VolumePorod 166 nm3

SASDC84 – parDE-like toxin-antitoxin module, EcPaaA2_13-63-HisEcParE2 construct

Plasmid stabilization protein ParEUncharacterized protein experimental SAS data
parDE-like toxin-antitoxin module, EcPaaA2_13-63-HisEcParE2 construct Rg histogram
Sample: Plasmid stabilization protein ParE monomer, 13 kDa Escherichia coli protein
Uncharacterized protein monomer, 6 kDa Escherichia coli O157:H7 protein
Buffer: 50 mM Tris-HCl, 500 mM NaCl, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2012 Feb 5
A unique hetero-hexadecameric architecture displayed by the Escherichia coli O157 PaaA2-ParE2 antitoxin-toxin complex. J Mol Biol 428(8):1589-603 (2016)
...Shkumatov AV, Garcia-Pino A, Geerts L, De Kerpel M, Lah J, De Greve H, Van Melderen L, Loris R
RgGuinier 2.2 nm
Dmax 9.3 nm
VolumePorod 36 nm3