Browse by MODEL: Hybrid

SASDUA4 – Ribonuclease A Updated Consensus SAXS Data

Ribonuclease pancreatic experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Ribonuclease pancreatic monomer, 14 kDa Bos taurus protein
Buffer: 50 mM Tris, 100 mM NaCl, pH: 7.5
Experiment: SANS data collected at (Consensus SAS), Multi-facility, Multiple countries on 2024 Feb 4
Benchmarking predictive methods for small-angle X-ray scattering from atomic coordinates of proteins using maximum likelihood consensus data IUCrJ 11(5) (2024)
Trewhella J, Vachette P, Larsen A
RgGuinier 1.5 nm
Dmax 5.0 nm

SASDUB4 – Urate Oxidase Updated Consensus SAXS Data

Uricase experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Uricase tetramer, 136 kDa Aspergillus flavus protein
Buffer: 100 mM Tris, 150 mM NaCl, pH: 8
Experiment: SANS data collected at (Consensus SAS), Multi-facility, Multiple countries on 2024 Feb 4
Benchmarking predictive methods for small-angle X-ray scattering from atomic coordinates of proteins using maximum likelihood consensus data IUCrJ 11(5) (2024)
Trewhella J, Vachette P, Larsen A
RgGuinier 3.2 nm
Dmax 9.3 nm

SASDUC4 – Xylose Isomerase Updated Consensus SAXS Data

Xylose isomerase experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Xylose isomerase tetramer, 173 kDa Streptomyces rubiginosus protein
Buffer: 50 mM Tris, 100 mM NaCl, 1 mM MgCl2, pH: 7.5
Experiment: SANS data collected at (Consensus SAS), Multi-facility, Multiple countries on 2024 Feb 4
Benchmarking predictive methods for small-angle X-ray scattering from atomic coordinates of proteins using maximum likelihood consensus data IUCrJ 11(5) (2024)
Trewhella J, Vachette P, Larsen A
RgGuinier 3.3 nm
Dmax 10.1 nm

SASDUD4 – Xylanase Updated Consensus SAXS Data

Endo-1,4-beta-xylanase experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Endo-1,4-beta-xylanase monomer, 21 kDa Trichoderma longibrachiatum protein
Buffer: 50 mM Tris, 100 mM NaCl, pH: 7.5
Experiment: SANS data collected at (Consensus SAS), Multi-facility, Multiple countries on 2024 Feb 4
Benchmarking predictive methods for small-angle X-ray scattering from atomic coordinates of proteins using maximum likelihood consensus data IUCrJ 11(5) (2024)
Trewhella J, Vachette P, Larsen A
RgGuinier 1.6 nm
Dmax 5.2 nm

SASDUE4 – Lysozyme Updated Consensus SAXS Data

Lysozyme C experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Lysozyme C monomer, 14 kDa Gallus gallus protein
Buffer: 50 mM sodium citrate, 150 mM NaCl, pH: 4.5
Experiment: SANS data collected at (Consensus SAS), Multi-facility, Multiple countries on 2024 Feb 4
Benchmarking predictive methods for small-angle X-ray scattering from atomic coordinates of proteins using maximum likelihood consensus data IUCrJ 11(5) (2024)
Trewhella J, Vachette P, Larsen A
RgGuinier 1.5 nm
Dmax 4.7 nm

SASDSU5 – Histidine-phosphotransferase from Candida albicans

Phosphorelay intermediate protein YPD1 experimental SAS data
SASREF model
Sample: Phosphorelay intermediate protein YPD1 monomer, 19 kDa Candida albicans (strain … protein
Buffer: 50 mM Tris-HCl pH 8, 300 mM NaCl, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2022 Oct 10
Structural and functional insights underlying recognition of histidine phosphotransfer protein in fungal phosphorelay systems Communications Biology 7(1) (2024)
Paredes-Martínez F, Eixerés L, Zamora-Caballero S, Casino P
RgGuinier 2.5 nm
Dmax 11.5 nm
VolumePorod 33 nm3

SASDUV2 – MBP-fused Schistosoma mansoni Septin-10 C-terminal coiled-coil domain (MBP-SmSEPT10C)

Septin-10 experimental SAS data
OMEGAFOLD model
Sample: Septin-10 dimer, 110 kDa Schistosoma mansoni protein
Buffer: 50 mM Tris, 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 May 17
Novel lipid-interaction motifs within the C-terminal domain of Septin10 from Schistosoma mansoni Biochimica et Biophysica Acta (BBA) - Biomembranes :184371 (2024)
Cavini I, Fontes M, Zeraik A, Lopes J, Araújo A
RgGuinier 5.7 nm
Dmax 27.4 nm
VolumePorod 175 nm3

SASDU29 – The homeodomain of Cone-rod homeobox protein (CRX) bound to Ret4 of the rhodopsin promoter

Cone-rod homeobox proteinRet4 sense strandRet4 antisense strand experimental SAS data
COOT model
Sample: Cone-rod homeobox protein, 20 kDa Homo sapiens protein
Ret4 sense strand, 6 kDa synthetic construct DNA
Ret4 antisense strand, 6 kDa synthetic construct DNA
Buffer: 20 mM Tris, 150 mM KCl, 5 % glycerol, 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2021 Mar 25
Molecular basis of CRX/DNA recognition and stoichiometry at the Ret4 response element Structure (2024)
Srivastava D, Gowribidanur-Chinnaswamy P, Gaur P, Spies M, Swaroop A, Artemyev N
RgGuinier 2.2 nm
Dmax 6.8 nm
VolumePorod 37 nm3

SASDUV3 – SAXS analysis of the LrpA backbone-Pilin Subunit from Ligilactobacillus ruminis

LPXTG-motif cell wall anchor domain protein experimental SAS data
ALPHAFOLD model
Sample: LPXTG-motif cell wall anchor domain protein monomer, 49 kDa Ligilactobacillus ruminis ATCC … protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2021 Nov 1
The crystal structure of the N-terminal domain of the backbone pilin LrpA reveals a new closure-and-twist motion for assembling dynamic pili in Ligilactobacillus ruminis Acta Crystallographica Section D Structural Biology 80(7):474-492 (2024)
Prajapati A, Palva A, von Ossowski I, Krishnan V
RgGuinier 3.5 nm
Dmax 10.6 nm
VolumePorod 59 nm3

SASDVW3 – Lipoprotein NlpI dimer bound to two asymmetrical murein DD-endopeptidase mMepS dimers at pH 7.0

Lipoprotein NlpIMurein DD-endopeptidase MepS/Murein LD-carboxypeptidase experimental SAS data
PYMOL model
Sample: Lipoprotein NlpI dimer, 63 kDa Escherichia coli (strain … protein
Murein DD-endopeptidase MepS/Murein LD-carboxypeptidase tetramer, 73 kDa Escherichia coli (strain … protein
Buffer: 0.2 M Na/K phosphate pH 7.0, 2 mM 2-mercaptoethanol, pH: 7
Experiment: SAXS data collected at TPS13A, NSRRC on 2023 Sep 7
Structural basis for recruitment of peptidoglycan endopeptidase MepS by lipoprotein NlpI. Nat Commun 15(1):5461 (2024)
Wang S, Huang CH, Lin TS, Yeh YQ, Fan YS, Wang SW, Tseng HC, Huang SJ, Chang YY, Jeng US, Chang CI, Tzeng SR
RgGuinier 3.5 nm
Dmax 11.5 nm
VolumePorod 123 nm3