{ "code": "SASDCP7", "status": "Published", "type_of_curve": "Other", "angular_unit": "1/A", "project": { "title": "Structural Dynamics Control Allosteric Activation of Cytohesin Family Arf GTPase Exchange Factors.", "publication": { "title": "Structural Dynamics Control Allosteric Activation of Cytohesin Family Arf GTPase Exchange Factors.", "author_list": "Malaby AW, Das S, Chakravarthy S, Irving TC, Bilsel O, Lambright DG", "journal": "Structure", "doi": "10.1016/j.str.2017.11.019", "pmid": "29276036", "published_date": "2018 Jan 2" }, "status": "released", "submitted_date": "2017-09-22", "released_date": "2018-01-02" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDCP7.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDCP7.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDCP7_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDCP7_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDCP7_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDCP7_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDCP7.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "MAR 165 CCD", "resolution": null }, "name": "Advanced Photon Source (APS), Argonne National Laboratory", "city": "Lemont, IL", "country": "USA", "beamline_name": "BioCAT 18ID", "beam_geometry": null, "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": "Grp1 63-399 E161A 6GS Arf6 Q67L SUMO fusion protein", "short_name": null, "sequence": "MGHHHHHHGSTTQRNKQIAMGRKKFNMDPKKGIQFLIENDLLQSSPEDVAQFLYKGEGLN\r\nKTVIGDYLGERDEFNIKVLQAFVELHEFADLNLVQALRQFLWSFRLPGEAQKIDRMMEAF\r\nASRYCLCNPGVFQSTDTCYVLSFAIIMLNTSLHNHNVRDKPTAERFIAMNRGINEGGDLP\r\nEELLRNLYESIKNEPFKIPEDDGNDLTHTFFNPDREGWLLKLGGRVKTWKRRWFILTDNC\r\nLYYFEYTTDKEPRGIIPLENLSIREVEDPRKPNCFELYNPSHKGQVIKACKTEADGRVVE\r\nGNHVVYRISAPSPEEKEEWMKSIKASISRDPFYDMLATRKRRIANKKGSGSGSGSGSGSM\r\nGKVLSKIFGNKEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVETVTYKNVKFNV\r\nWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFA\r\nNKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYKSGDSEVN\r\nQEAKPEVKPEVKPETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLY\r\nDGIRIQADQTPEDLDMEDNDIIEAHREQIGGS", "organism": "Mus musculus", "uniprot_code": null, "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": null, "mw": 72.469, "total_mw": 72.469, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "20 mM Tris, 150 mM NaCl, 2 mM MgCl2, 0.1% 2-mercaptoethanol, 5% glycerol, 0.001 mM insitol 1,3,4,5-tetrakis phosphate", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 8.0, "deuteration": null }, "purity_method": null, "name": "Truncated monomeric Cytohesin-3 (Grp1; amino acids 63-399) E161A 6GS Arf6 Q67L SUMO fusion protein", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "UMASS", "address": "Worcester, MA, USA", "full_name": "UMASS Medical School", "webpage": "https://www.umassmed.edu/" } ], "contributor_name": "David", "contributor_surname": "Lambright", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2013-11-15", "storage_temperature": null, "cell_temperature": 20.0, "exposure_time": 1.0, "number_of_frames": 1, "wavelength": 0.10332, "sample_detector_distance": 2.5, "concentration_min": 0.0, "concentration_max": 2.6, "sample_volume": null, "flow_rate": null, "s_min": 0.069, "s_max": 3.327, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDCP7_fit1_model1_img.png", "software": "DAMMIF", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "r2835", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDCP7_fit1_model1.pdb", "model_mw": 56.5, "bead_radius": 3.1, "log": "https://www.sasbdb.org/media/log_files/dammif-54.log", "symmetry": "P1", "comment": "Most representative of 100 dammif models", "user": 241 }, { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDCP7_fit1_model2_img.png", "software": "DAMFILT", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDCP7_fit1_model2.pdb", "model_mw": 67.4, "bead_radius": 3.0, "log": null, "symmetry": "P1", "comment": "Filtered average of 10 filtered averages of 10 dammif models", "user": 241 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDCP7_fit1_fit_img.png", "software": "DAMMIF", "chi_square_value": 1.57, "p_value": 0.000114, "fit_residual_plot": "SASDCP7_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDCP7_fit1.fir", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/dammif-54.log", "software_version": "r2835", "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": "5.0", "i0_calibration_standard": null, "description": null, "experiment_description": "This experimental profile was derived from SEC-SAXS data collected at the BioCAT Sector 18-ID beamline at the Argonne National Laboratory Advanced Photon Source using a MAR 165 CCD detector. The protein was equilibrated with a 1.2 molar excess of inositol 1,3,4,5-tetrakis phosphate (IP4), concentrated to 10 mg/ml, and injected in 0.1 ml onto a 3 ml Superdex-200 Increase column equilibrated with 20 mM Tris, pH 8.0, 150 mM NaCl, 2 mM MgCl2, 0.1% 2-mercaptoethanol, 5% glycerol, and 0.001 ml IP4. SAXS data sets were acquired with 1 s exposures at 5 s intervals during elution at a flow rate of 0.25 ml/min. Raw SAXS images were radially averaged on a log scale over the q range 0.00621-0.333 Å-1 and normalized by the incident beam intensity. The protein scattering profile was reconstructed by singular value decomposition and linear combination (SVD-LC) as described in Malaby et al. (2015) Methods for analysis of size-exclusion chromatography-small angle X-ray scattering and reconstruction of protein scattering. J Appl Crystallogr 48: 1102-1113.", "tags": [], "intensity_unit": "arbitrary", "experimental_mw": 77.6, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 77.6, "porod_mw_error": null, "pddf_i0": 1.02, "pddf_i0_error": 0.002, "guinier_i0": 1.02, "guinier_i0_error": 0.001, "pddf_rg": 3.81, "pddf_rg_error": 0.01, "guinier_rg": 3.8, "guinier_rg_error": 0.01, "pddf_dmax": 14.5, "pddf_dmax_error": 0.1, "porod_volume": 116.4, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 1, "guinier_point_last": 27, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDCP7_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }