{ "code": "SASDVC8", "status": "Published", "type_of_curve": "SEC-SAS", "angular_unit": "1/A", "project": { "title": "Unraveling the molecular grammar and the structural transitions underlying the fibrillation of a viral fibrillogenic domain.", "publication": { "title": "Unraveling the molecular grammar and the structural transitions underlying the fibrillation of a viral fibrillogenic domain.", "author_list": "Gondelaud F, Leval J, Arora L, Walimbe A, Bignon C, Ptchelkine D, Brocca S, Mukhopadyay S, Longhi S", "journal": "Protein Sci", "doi": "10.1002/pro.70068", "pmid": "39985377", "published_date": "2025 Mar" }, "status": "released", "submitted_date": "2024-10-14", "released_date": "2025-02-24" }, "pddf_data": null, "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDVC8.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVC8_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVC8_kratky_img.png", "pddf_plot": null, "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVC8_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDVC8.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus3 2M", "resolution": 0.172 }, "name": "ESRF", "city": "Grenoble", "country": "France", "beamline_name": "BM29", "beam_geometry": "point", "type_of_source": "X-ray synchrotron", "point_source": null, "line_collimation": null, "sample_path_length": null, "line_collimation_slitlength": null, "line_collimation_integrationwidth": null, "xray_energy": null, "beam_profile_ah": null, "beam_profile_al": null }, "sample": { "molecule": [ { "long_name": "Protein W", "short_name": "PNT3", "sequence": "MSYYHHHHHHLESTSLYKKAGFTPTEEPPVIPEYYYGSGRRGDLSKSPPRGNVNLDSIKIYTSDDEDENQLEYEDEFAKSSSEVVIDTTPEDNDSINQEEVVGDPSDQGLEHPFPLGKFPEKEETPDVRRKDS", "organism": "Hendra virus (isolate Horse/Autralia/Hendra/1994)", "uniprot_code": "P0C1C6", "uniprot_range_first": 200, "uniprot_range_last": 310, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MDKLDLVNDGLDIIDFIQKNQKEIQKTYGRSSIQQPSTKDRTRAWEDFLQSTSGEHEQAE\nGGMPKNDGGTEGRNVEDLSSVTSSDGTIGQRVSNTRAWAEDPDDIQLDPMVTDVVYHDHG\nGECTGHGPSSSPERGWSYHMSGTHDGNVRAVPDTKVLPNAPKTTVPEEVREIDLIGLEDK\nFASAGLNPAAVPFVPKNQSTPTEEPPVIPEYYYGSGRRGDLSKSPPRGNVNLDSIKIYTS\nDDEDENQLEYEDEFAKSSSEVVIDTTPEDNDSINQEEVVGDPSDQGLEHPFPLGKFPEKE\nETPDVRRKDSLMQDSCKRGGVPKRLPMLSEEFECSGSDDPIIQELEREGSHPGGSLRLRE\nPPQSSGNSRNQPDRQLKTGDAASPGGVQRPGTPMPKSRIMPIKKGAQTRSLNMLGRKTCL\nGRRVVQPGMFADYPPTKKARVLLRRMSN", "mw": 15.198, "total_mw": 15.198, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": "The protein construct used for SAXS contains a non-native polyhistitine tag and additional amino acids (MSYYHHHHHHLESTSLYKKAGF)." } ], "buffer": { "name": "20 mM HEPES, 150 mM NaCl", "concentration_unit": null, "comment": "HBS", "additive": null, "concentration": null, "pka": null, "ph": 7.2, "deuteration": null }, "purity_method": null, "name": "Hendra virus protein P/V/W PNT3 domain", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "13288 Marseille, France", "full_name": "CNRS, AFMB UMR 7257 ", "webpage": "" } ], "contributor_name": "Frank", "contributor_surname": "Gondelaud", "orcid": "" } ], "concentration_method": null, "concentration_unit": null, "date": "2023-06-13", "storage_temperature": 4.0, "cell_temperature": 20.0, "exposure_time": 1.0, "number_of_frames": 600, "wavelength": 0.099, "sample_detector_distance": 2.835, "concentration_min": null, "concentration_max": 5.0, "sample_volume": 45.0, "flow_rate": 0.3, "s_min": 0.078, "s_max": 5.045, "total_exposure_time": null, "seccolumn": 37 }, "fits": [ { "models": [], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDVC8_fit1_fixed_fit_img.png", "software": "EOM/GAJOE", "chi_square_value": 1.094, "p_value": 0.6064, "fit_residual_plot": "SASDVC8_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDVC8_fit1.fit", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/logFile_001_1_LNuNaV6.log", "software_version": null, "description": "EOM online was used." } ], "estimated_volume_method": null, "pddf_software": null, "pddf_software_version": null, "i0_calibration_standard": null, "description": null, "experiment_description": "Synchrotron SAXS data from solutions of Hendra virus protein P/V/W PNT3 domain in 20 mM HEPES, 150 mM NaCl, pH 7.2 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus3 2M detector at a sample-detector distance of 2.8 m and at a wavelength of λ = 0.099 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 45.00 μl sample at 5 mg/ml was injected at a 0.30 ml/min flow rate onto a Agilent AdvanceBio SEC 2.7 µm - 130 Å column at 20°C. 600 successive 1 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.", "tags": [], "intensity_unit": "1/cm", "experimental_mw": 21.2, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 26.0, "porod_mw_error": null, "pddf_i0": null, "pddf_i0_error": null, "guinier_i0": 19.5438, "guinier_i0_error": null, "pddf_rg": null, "pddf_rg_error": null, "guinier_rg": 3.422, "guinier_rg_error": 0.18, "pddf_dmax": 13.5, "pddf_dmax_error": null, "porod_volume": 41.5, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 1, "guinier_point_last": 49, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDVC8_datloglog_img.png", "symmetry": null, "last_modified": "2025-02-24T10:52:45.147375+01:00", "bragg_peak": [] }