Browse by ORGANISM: other species

SASDG93 – Pyrococcus furiosus Box C/D sRNP reconstituted with st-sR6 sRNA bound to substrate D' (SAXS data)

Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase50S ribosomal protein L7AeNOP5/NOP56 related proteinpyrococcus furiosus sR26 stabilized constructPyrococcus furiosus sR26 substrate D' experimental SAS data
Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase 50S ribosomal protein L7Ae NOP5/NOP56 related protein pyrococcus furiosus sR26 stabilized construct Pyrococcus furiosus sR26 substrate D' Kratky plot
Sample: Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase dimer, 52 kDa Pyrococcus furiosus protein
50S ribosomal protein L7Ae dimer, 27 kDa Pyrococcus furiosus protein
NOP5/NOP56 related protein dimer, 94 kDa Pyrococcus furiosus protein
Pyrococcus furiosus sR26 stabilized construct monomer, 24 kDa Pyrococcus furiosus RNA
Pyrococcus furiosus sR26 substrate D' monomer, 4 kDa Pyrococcus furiosus RNA
Buffer: 50 mM phosphate 500 mM NaCl, pH: 6.6
Experiment: SAXS data collected at BM29, ESRF on 2015 Jun 13
The guide sRNA sequence determines the activity level of box C/D RNPs. Elife 9 (2020)
Graziadei A, Gabel F, Kirkpatrick J, Carlomagno T
RgGuinier 4.7 nm
Dmax 15.8 nm
VolumePorod 346 nm3

SASDGA3 – Pyrococcus furiosus Box C/D sRNP reconstituted with st-sR6 sRNA bound to substrate D (SAXS data)

Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase50S ribosomal protein L7AeNOP5/NOP56 related proteinpyrococcus furiosus sR26 stabilized constructPyrococcus furiosus sR26 substrate D experimental SAS data
Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase 50S ribosomal protein L7Ae NOP5/NOP56 related protein pyrococcus furiosus sR26 stabilized construct Pyrococcus furiosus sR26 substrate D Kratky plot
Sample: Fibrillarin-like rRNA/tRNA 2'-O-methyltransferase dimer, 52 kDa Pyrococcus furiosus protein
50S ribosomal protein L7Ae dimer, 27 kDa Pyrococcus furiosus protein
NOP5/NOP56 related protein dimer, 94 kDa Pyrococcus furiosus protein
Pyrococcus furiosus sR26 stabilized construct monomer, 24 kDa Pyrococcus furiosus RNA
Pyrococcus furiosus sR26 substrate D monomer, 4 kDa Pyrococcus furiosus RNA
Buffer: 50 mM phosphate 500 mM NaCl, pH: 6.6
Experiment: SAXS data collected at BM29, ESRF on 2015 Jul 13
The guide sRNA sequence determines the activity level of box C/D RNPs. Elife 9 (2020)
Graziadei A, Gabel F, Kirkpatrick J, Carlomagno T
RgGuinier 5.0 nm
Dmax 17.0 nm
VolumePorod 429 nm3

SASDHQ8 – Severe fever with thrombocytopenia syndrome virus (SFTSV) full-length L protein

Severe fever with thrombocytopenia syndrome virus L protein - RNA-dependent RNA polymerase experimental SAS data
Severe fever with thrombocytopenia syndrome virus L protein - RNA-dependent RNA polymerase Kratky plot
Sample: Severe fever with thrombocytopenia syndrome virus L protein - RNA-dependent RNA polymerase monomer, 238 kDa SFTS virus AH12 protein
Buffer: 50 mM HEPES(NaOH) pH 7.0, 500 mM NaCl, 5% (w/v) glycerol, and 2 mM dithiothreitol, pH: 7
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Sep 13
Structural and functional characterization of the Severe fever with thrombocytopenia syndrome virus L protein (2020)
Vogel D, Thorkelsson S, Quemin E, Meier K, Kouba T, Gogrefe N, Busch C, Reindl S, Günther S, Cusack S, Grünewald K, Rosenthal M
RgGuinier 4.5 nm
Dmax 14.3 nm
VolumePorod 483 nm3

SASDHC2 – PieE-FAD: 2,4-dichlorophenol 6-monooxygenase bound to flavin adenine dinucleotide

2,4-dichlorophenol 6-monooxygenaseFlavin adenine dinucleotide experimental SAS data
DAMMIN model
Sample: 2,4-dichlorophenol 6-monooxygenase hexamer, 399 kDa Streptomyces sp. SCSIO … protein
Flavin adenine dinucleotide hexamer, 5 kDa
Buffer: 20 mM Tris, 150 mM NaCl, 5 mM DTT, 2% glycerol, pH: 7.5
Experiment: SAXS data collected at Xenocs BioXolver L with MetalJet, Département de Biochimie, Université de Montréal on 2019 Oct 22
Structural analyses of the group A flavin-dependent monooxygenase PieE reveal a sliding FAD cofactor conformation bridging OUT and IN conformations. J Biol Chem (2020)
Manenda MS, Picard MÈ, Zhang L, Cyr N, Zhu X, Barma J, Pascal JM, Couture M, Zhang C, Shi R
RgGuinier 4.8 nm
Dmax 13.2 nm
VolumePorod 624 nm3

SASDGA5 – The C-terminal cell-surface signaling domain of the Pseudomonas capeferrum anti-sigma regulator PupR

PupR protein experimental SAS data
MULTIFOXS model
Sample: PupR protein monomer, 24 kDa Pseudomonas putida protein
Buffer: 25 mM HEPES 400 mM LiCl 10% v/v glycerol, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2016 Mar 16
Structural basis of cell surface signaling by a conserved sigma regulator in Gram-negative bacteria. J Biol Chem (2020)
Jensen JL, Jernberg BD, Sinha S, Colbert CL
RgGuinier 2.2 nm
Dmax 7.5 nm
VolumePorod 49 nm3

SASDGU5 – The C-terminal cell-surface signaling domain of the Pseudomonas capeferrum anti-sigma regulator PupR in complex with the outer membrane transporter PupB N-terminal signaling domain

PupR proteinFerric-pseudobactin BN7/BN8 receptor experimental SAS data
DAMFILT model
Sample: PupR protein monomer, 24 kDa Pseudomonas putida protein
Ferric-pseudobactin BN7/BN8 receptor monomer, 8 kDa Pseudomonas putida protein
Buffer: 25 mM HEPES 400 mM LiCl 10% v/v glycerol, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2016 Mar 16
Structural basis of cell surface signaling by a conserved sigma regulator in Gram-negative bacteria. J Biol Chem (2020)
Jensen JL, Jernberg BD, Sinha S, Colbert CL
RgGuinier 2.5 nm
Dmax 8.7 nm
VolumePorod 56 nm3

SASDGC6 – Glucuronoyl esterase, deglycolsylated full length

4-O-methyl-glucuronoyl methylesterase (Glucuronoyl esterase) experimental SAS data
DAMMIN model
Sample: 4-O-methyl-glucuronoyl methylesterase (Glucuronoyl esterase) monomer, 51 kDa Cerrena unicolor protein
Buffer: 20 mM sodium acetate, pH: 5
Experiment: SAXS data collected at Xenocs BioXolver L with GeniX3D, University of Copenhagen, Department of Drug Design and Pharmacology on 2018 Oct 10
The structural basis of fungal glucuronoyl esterase activity on natural substrates. Nat Commun 11(1):1026 (2020)
Ernst HA, Mosbech C, Langkilde AE, Westh P, Meyer AS, Agger JW, Larsen S
RgGuinier 3.2 nm
Dmax 11.0 nm
VolumePorod 71 nm3

SASDGD6 – Glucuronoyl esterase S286A, deglycolsylated truncated (amino acids 95-474)

4-O-methyl-glucuronoyl methylesterase (Glucuronoyl esterase, truncated) experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: 4-O-methyl-glucuronoyl methylesterase (Glucuronoyl esterase, truncated) monomer, 43 kDa Cerrena unicolor protein
Buffer: 20 mM sodium acetate, pH: 5
Experiment: SAXS data collected at Xenocs BioXolver L with GeniX3D, University of Copenhagen, Department of Drug Design and Pharmacology on 2018 Oct 10
The structural basis of fungal glucuronoyl esterase activity on natural substrates. Nat Commun 11(1):1026 (2020)
Ernst HA, Mosbech C, Langkilde AE, Westh P, Meyer AS, Agger JW, Larsen S
RgGuinier 2.0 nm
Dmax 6.1 nm
VolumePorod 50 nm3

SASDG54 – Human macrophage mannose receptor 1 protein

Macrophage mannose receptor 1 experimental SAS data
ITASSER model
Sample: Macrophage mannose receptor 1 dimer, 315 kDa Mouse myeloma cell … protein
Buffer: 50mM Hepes, 100mM NaCl, 1mM DTT, pH: 7
Experiment: SAXS data collected at 12-ID-B SAXS/WAXS, Advanced Photon Source (APS), Argonne National Laboratory on 2016 Apr 15
Mannose receptor (CD206) activation in tumor-associated macrophages enhances adaptive and innate antitumor immune responses. Sci Transl Med 12(530) (2020)
Jaynes JM, Sable R, Ronzetti M, Bautista W, Knotts Z, Abisoye-Ogunniyan A, Li D, Calvo R, Dashnyam M, Singh A, Guerin T, White J, Ravichandran S, Kumar P, Talsania K, Chen V, Ghebremedhin A, Karanam B, Bin Salam A, Amin R, Odzorig T, Aiken T, Nguyen V, Bian Y, Zarif JC, de Groot AE, Mehta M, Fan L, Hu X, Simeonov A, Pate N, Abu-Asab M, Ferrer M, Southall N, Ock CY, Zhao Y, Lopez H, Kozlov S, de Val N, Yates CC, Baljinnyam B, Marugan J, Rudloff U
RgGuinier 7.9 nm
Dmax 30.1 nm
VolumePorod 584 nm3

SASDMJ4 – Lysozyme amyloid fibril (LAF)

lysozyme amyloid fibril experimental SAS data
DAMMIF model
Sample: Lysozyme amyloid fibril, 14 kDa Gallus gallus protein
Buffer: 0.2 M glycine-HCl, 80 mM NaCl, pH: 2.2
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Sep 5
Effect of the concentration of protein and nanoparticles on the structure of biohybrid nanocomposites. Biopolymers 111(2):e23342 (2020)
Majorošová J, Schroer MA, Tomašovičová N, Batková M, Hu PS, Kubovčíková M, Svergun DI, Kopčanský P
RgGuinier 30.2 nm
Dmax 120.0 nm