Browse by DISSEMINATION: Published

SASDN65 – A recoverin homology domain with EF hand domain of diacylglycerol kinase alpha under the condition without CaCl2

Diacylglycerol kinase alpha experimental SAS data
DAMMIF model
Sample: Diacylglycerol kinase alpha monomer, 22 kDa Homo sapiens protein
Buffer: 20mM TrisHCl, 200mM NaCl, 5mM DTT, 5% v/v Glycerol, 3mM EGTA, pH: 7.4
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2020 Dec 8
Ca 2+ ‐induced structural changes and intramolecular interactions in N‐terminal region of diacylglycerol kinase alpha Protein Science 31(7) (2022)
Takahashi D, Yonezawa K, Okizaki Y, Caaveiro J, Ueda T, Shimada A, Sakane F, Shimizu N
RgGuinier 1.9 nm
Dmax 7.0 nm
VolumePorod 44 nm3

SASDNJ7 – Non-pre-microRNA stem loop 2 (NPSL2)

Non-pre-microRNA stem loop 2 experimental SAS data
PYMOL model
Sample: Non-pre-microRNA stem loop 2 monomer, 14 kDa Homo sapiens RNA
Buffer: 50 mM potassium phosphate buffer, 1 mM MgCl2, 50 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 20
Solution structure of NPSL2, a regulatory element in the oncomiR-1 RNA. J Mol Biol :167688 (2022)
Liu Y, Munsayac A, Hall I, Keane SC
RgGuinier 2.0 nm
Dmax 7.7 nm
VolumePorod 15 nm3

SASDNL2 – LincRNA-p21 Sense Alu Inverted Repeat

LincRNA-p21 AluSx1 Sense RNA experimental SAS data
DAMMIN model
Sample: LincRNA-p21 AluSx1 Sense RNA monomer, 100 kDa Homo sapiens RNA
Buffer: 50mM HEPES,150 mM NaCl, 15 mM MgCl2, 3% glycerol, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Jul 1
Biophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeats. Nucleic Acids Res 50(10):5881-5898 (2022)
D'Souza MH, Mrozowich T, Badmalia MD, Geeraert M, Frederickson A, Henrickson A, Demeler B, Wolfinger MT, Patel TR
RgGuinier 6.1 nm
Dmax 18.5 nm
VolumePorod 225 nm3

SASDNM2 – LincRNA-p21 Antisense Alu Inverted Repeat

LincRNA-p21 AluSx1 Antisense RNA experimental SAS data
DAMMIN model
Sample: LincRNA-p21 AluSx1 Antisense RNA monomer, 90 kDa Homo sapiens RNA
Buffer: 50mM HEPES,150 mM NaCl, 15 mM MgCl2, 3% glycerol, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Jul 1
Biophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeats. Nucleic Acids Res 50(10):5881-5898 (2022)
D'Souza MH, Mrozowich T, Badmalia MD, Geeraert M, Frederickson A, Henrickson A, Demeler B, Wolfinger MT, Patel TR
RgGuinier 5.9 nm
Dmax 18.1 nm
VolumePorod 375 nm3

SASDMC4 – Plasmodium falciparum tyrosyl-tRNA synthetase

Tyrosine--tRNA ligase experimental SAS data
OTHER model
Sample: Tyrosine--tRNA ligase dimer, 87 kDa Plasmodium falciparum (isolate … protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, 0.5 mM TCEP, 0.1% sodium azide, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2021 Jun 4
Reaction hijacking of tyrosine tRNA synthetase as a new whole-of-life-cycle antimalarial strategy Science 376(6597):1074-1079 (2022)
Xie S, Metcalfe R, Dunn E, Morton C, Huang S, Puhalovich T, Du Y, Wittlin S, Nie S, Luth M, Ma L, Kim M, Pasaje C, Kumpornsin K, Giannangelo C, Houghton F, Churchyard A, Famodimu M, Barry D, Gillett D, Dey S, Kosasih C, Newman W, Niles J, Lee M, Baum J, Ottilie S, Winzeler E, Creek D, Williamson N, Parker M, Brand S, Langston S, Dick L, Griffin M, Gould A, Tilley L
RgGuinier 3.7 nm
Dmax 12.1 nm
VolumePorod 126 nm3

SASDMD4 – Plasmodium falciparum tyrosyl-tRNA synthetase, S234C mutant

Tyrosine--tRNA ligase (S234C) experimental SAS data
OTHER model
Sample: Tyrosine--tRNA ligase (S234C) dimer, 87 kDa Plasmodium falciparum (isolate … protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, 0.5 mM TCEP, 0.1% sodium azide, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2021 Jun 4
Reaction hijacking of tyrosine tRNA synthetase as a new whole-of-life-cycle antimalarial strategy Science 376(6597):1074-1079 (2022)
Xie S, Metcalfe R, Dunn E, Morton C, Huang S, Puhalovich T, Du Y, Wittlin S, Nie S, Luth M, Ma L, Kim M, Pasaje C, Kumpornsin K, Giannangelo C, Houghton F, Churchyard A, Famodimu M, Barry D, Gillett D, Dey S, Kosasih C, Newman W, Niles J, Lee M, Baum J, Ottilie S, Winzeler E, Creek D, Williamson N, Parker M, Brand S, Langston S, Dick L, Griffin M, Gould A, Tilley L
RgGuinier 3.7 nm
Dmax 12.0 nm
VolumePorod 124 nm3

SASDME4 – Human tyrosyl tRNA synthetase

Tyrosine--tRNA ligase, cytoplasmic experimental SAS data
OTHER model
Sample: Tyrosine--tRNA ligase, cytoplasmic dimer, 82 kDa Homo sapiens protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, 0.5 mM TCEP, 0.1% sodium azide, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2021 Jun 4
Reaction hijacking of tyrosine tRNA synthetase as a new whole-of-life-cycle antimalarial strategy Science 376(6597):1074-1079 (2022)
Xie S, Metcalfe R, Dunn E, Morton C, Huang S, Puhalovich T, Du Y, Wittlin S, Nie S, Luth M, Ma L, Kim M, Pasaje C, Kumpornsin K, Giannangelo C, Houghton F, Churchyard A, Famodimu M, Barry D, Gillett D, Dey S, Kosasih C, Newman W, Niles J, Lee M, Baum J, Ottilie S, Winzeler E, Creek D, Williamson N, Parker M, Brand S, Langston S, Dick L, Griffin M, Gould A, Tilley L
RgGuinier 3.6 nm
Dmax 11.5 nm
VolumePorod 118 nm3

SASDNB7 – C-terminal domain of pUL21 with N-terminal His-tag

Tegument protein UL21 (C-terminal domain) experimental SAS data
GASBOR model
Sample: Tegument protein UL21 (C-terminal domain) monomer, 29 kDa Human herpesvirus 1 … protein
Buffer: 20 mM Tris pH 8.5, 500 mM NaCl, 3% (v/v) glycerol, 1 mM DTT, pH: 8.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Sep 25
Herpes simplex virus 1 protein pUL21 alters ceramide metabolism by activating the inter-organelle transport protein CERT Journal of Biological Chemistry :102589 (2022)
Benedyk T, Connor V, Caroe E, Shamin M, Svergun D, Deane J, Jeffries C, Crump C, Graham S
RgGuinier 2.2 nm
Dmax 8.5 nm
VolumePorod 49 nm3

SASDNC7 – miniCERTL with N-terminal His-tag

Ceramide transfer protein (recombinant CERTL: amino acids 20-130 and 351-624) experimental SAS data
GASBOR model
Sample: Ceramide transfer protein (recombinant CERTL: amino acids 20-130 and 351-624) monomer, 45 kDa Homo sapiens protein
Buffer: 20 mM Tris pH 8.5, 500 mM NaCl, 3% (v/v) glycerol, 1 mM DTT, pH: 8.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Sep 25
Herpes simplex virus 1 protein pUL21 alters ceramide metabolism by activating the inter-organelle transport protein CERT Journal of Biological Chemistry :102589 (2022)
Benedyk T, Connor V, Caroe E, Shamin M, Svergun D, Deane J, Jeffries C, Crump C, Graham S
RgGuinier 2.7 nm
Dmax 9.1 nm
VolumePorod 71 nm3

SASDND7 – Complex of H6-pUL21C and H6-miniCERTL

Tegument protein UL21 (C-terminal domain)Ceramide transfer protein (recombinant CERTL: amino acids 20-130 and 351-624) experimental SAS data
GASBOR model
Sample: Tegument protein UL21 (C-terminal domain) monomer, 29 kDa Human herpesvirus 1 … protein
Ceramide transfer protein (recombinant CERTL: amino acids 20-130 and 351-624) monomer, 45 kDa Homo sapiens protein
Buffer: 20 mM Tris pH 8.5, 500 mM NaCl, 3% (v/v) glycerol, 1 mM DTT, pH: 8.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Sep 25
Herpes simplex virus 1 protein pUL21 alters ceramide metabolism by activating the inter-organelle transport protein CERT Journal of Biological Chemistry :102589 (2022)
Benedyk T, Connor V, Caroe E, Shamin M, Svergun D, Deane J, Jeffries C, Crump C, Graham S
RgGuinier 3.3 nm
Dmax 13.6 nm
VolumePorod 84 nm3