{ "code": "SASDC55", "status": "Published", "type_of_curve": "Merged", "angular_unit": "1/nm", "project": { "title": "Comparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome.", "publication": { "title": "Comparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome.", "author_list": "Silva NSM, Seraphim TV, Minari K, Barbosa LRS, Borges JC", "journal": "Int J Biol Macromol", "doi": "10.1016/j.ijbiomac.2017.11.161", "pmid": "29191421", "published_date": "2018 Mar" }, "status": "released", "submitted_date": "2017-06-17", "released_date": "2017-12-05" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDC55.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDC55.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC55_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC55_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDC55_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC55_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDC55.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "MAR 165 CCD", "resolution": null }, "name": "Brazilian Synchrotron Light Laboratory", "city": "Campinas", "country": "Brazil", "beamline_name": "SAXS2 Beamline", "beam_geometry": "", "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": "CS domain protein, putative", "short_name": "Pfp23A", "sequence": "GSHMGEIYNKRHKYMNNGVLIYEWEQSIDEINIYIDMNSKLVNKNDLNIEIKSKRITIGLKNTKNFLEGE\r\nLFSIIDEDCSYWFIEDNNLHILLTKVKKGESWNSVFKGHKNLNPVDEDNTKKQILLERFQQEYPNFDFSS\r\nASFNGQVPDARTFMGGLKY", "organism": "Plasmodium falciparum", "uniprot_code": "Q8I2N9", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MGEIYNKRHKYMNNGVLIYEWEQSIDEINIYIDMNSKLVNKNDLNIEIKSKRITIGLKNT\nKNFLEGELFSIIDEDCSYWFIEDNNLHILLTKVKKGESWNSVFKGHKNLNPVDEDNTKKQ\nILLERFQQEYPNFDFSSASFNGQVPDARTFMGGLKY", "mw": 18.65, "total_mw": 18.65, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "25 mM Tris-HCl, 100 mM NaCl, 2 mM EDTA, 1 mM B-mercaptoethanol", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.4, "deuteration": null }, "purity_method": null, "name": "Plasmodium falciparum p23A", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "São Carlos - SP - Brasil", "full_name": "Instituto de Química de São Carlos", "webpage": "" } ], "contributor_name": "Júlio", "contributor_surname": "Borges", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2015-05-26", "storage_temperature": 4.0, "cell_temperature": 20.0, "exposure_time": 180.0, "number_of_frames": 1, "wavelength": 0.1488, "sample_detector_distance": 1.0, "concentration_min": 2.5, "concentration_max": 5.0, "sample_volume": null, "flow_rate": null, "s_min": 0.184, "s_max": 3.181, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDC55_fit1_model1_img.png", "software": "DAMFILT", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "5.0", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDC55_fit1_model1.pdb", "model_mw": 22.642, "bead_radius": 2.0, "log": null, "symmetry": "P1", "comment": "Average of 10 models generated by DAMMIN", "user": 161 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDC55_fit1_fit_img.png", "software": "DAMMIN", "chi_square_value": 0.684, "p_value": 0.0, "fit_residual_plot": "SASDC55_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDC55_fit1.fir", "fit_log": null, "software_version": "5.3", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "4.6", "i0_calibration_standard": null, "description": null, "experiment_description": "SAXS measurements were performed at the SAXS2 beam line located at the Brazilian Synchrotron Light Laboratory (LNLS), Campinas, São Paulo, Brazil. The X-ray scattering data (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle; λ = 0.1488 nm) were acquired using a two-dimension position-sensitive MARR-CCD detector and a sample-to-detector distance of ~1000 mm, corresponding to the q-range 0 < q < 0.35. In order to checking for protein aggregation or concentration-dependent effects, samples were prepared at various protein concentrations (2.5 mg/mL, 3 mg/mL and 5 mg/mL) in the buffer 25 mM Tris-HCl (pH 7.5), containing 150 mM NaCl, 2 mM EDTA and 1 mM β-mercaptoethanol. Samples were exposed to X-ray at different time frames (5 x 30 seconds, and 180 seconds) to investigate for X-ray damage. No radiation damage or concentration-dependent effect were observed. The model depicts the averaged spatial representation of the protein (DAMFILT occupancy and volume-corrected bead model).", "tags": [], "intensity_unit": null, "experimental_mw": 21.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": null, "porod_mw_error": null, "pddf_i0": 0.01292, "pddf_i0_error": 0.000139, "guinier_i0": 0.012933, "guinier_i0_error": 7.5e-05, "pddf_rg": 2.55, "pddf_rg_error": 0.03, "guinier_rg": 2.47, "guinier_rg_error": 0.09, "pddf_dmax": 8.5, "pddf_dmax_error": 5.0, "porod_volume": null, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 1, "guinier_point_last": 29, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDC55_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }