{ "code": "SASDZV5", "status": "Published", "type_of_curve": "SEC-SAS", "angular_unit": "1/A", "project": { "title": "The Rho guanine-nucleotide exchange factor P-Rex2 exhibits structural and regulatory features distinct from the related RhoGEF P-Rex1", "publication": { "title": "The Rho guanine-nucleotide exchange factor P-Rex2 exhibits structural and regulatory features distinct from the related RhoGEF P-Rex1", "author_list": "Anderson L, Marde R, Muma G, Nayak V, Phan C, Li S, Cash J", "journal": "Journal of Biological Chemistry", "doi": "10.1016/j.jbc.2026.113229", "pmid": null, "published_date": "2026 Jul" }, "status": "released", "submitted_date": "2026-04-03", "released_date": "2026-07-23" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDZV5.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDZV5.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDZV5_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDZV5_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDZV5_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDZV5_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDZV5.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus3 X 2M", "resolution": 172.0 }, "name": "Advanced Light Source (ALS)", "city": "Berkeley, CA", "country": "USA", "beamline_name": "12.3.1 (SIBYLS)", "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": "Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 2 DH/PH tandem", "short_name": "P-Rex2 DH/PH tandem", "sequence": "GAMDPMSEDSRGDSRAESAKDLEKQLRLRVCVLSELQKTERDYVGTLEFLVSAFLHRMNQCAASKVDKNVTEETVKMLFSNIEDILAVHKEFLKVVEECLHPEPNAQQEVGTCFLHFKDKFRIYDEYCSNHEKAQKLLLELNKIRTIRTFLLNCMLLGGRKNTDVPLEGYLVTPIQRICKYPLILKELLKRTPRKHSDYAAVMEALQAMKAVCSNINEAKRQMEKLEVLEEWQSHIEGWEGSNITDTCTEMLMCGVLLKISSGNIQERVFFLFDNLLVYCKRKHRRLKNSKASTDGHRYLFRGRINTEVMEVENVDDGTADFHSSGHIVVNGWKIHNTAKNKWFVCMAKTPEEKHEWFEAILKERERRKGLKLGMEQDTWVM", "organism": "Homo sapiens", "uniprot_code": "Q70Z35", "uniprot_range_first": 1, "uniprot_range_last": 377, "oligomerization": "monomer", "molecular_type": "protein", "uniprot_sequence": "MSEDSRGDSRAESAKDLEKQLRLRVCVLSELQKTERDYVGTLEFLVSAFLHRMNQCAASK\nVDKNVTEETVKMLFSNIEDILAVHKEFLKVVEECLHPEPNAQQEVGTCFLHFKDKFRIYD\nEYCSNHEKAQKLLLELNKIRTIRTFLLNCMLLGGRKNTDVPLEGYLVTPIQRICKYPLIL\nKELLKRTPRKHSDYAAVMEALQAMKAVCSNINEAKRQMEKLEVLEEWQSHIEGWEGSNIT\nDTCTEMLMCGVLLKISSGNIQERVFFLFDNLLVYCKRKHRRLKNSKASTDGHRYLFRGRI\nNTEVMEVENVDDGTADFHSSGHIVVNGWKIHNTAKNKWFVCMAKTPEEKHEWFEAILKER\nERRKGLKLGMEQDTWVMISEQGEKLYKMMCRQGNLIKDRKRKLTTFPKCFLGSEFVSWLL\nEIGEIHRPEEGVHLGQALLENGIIHHVTDKHQFKPEQMLYRFRYDDGTFYPRNEMQDVIS\nKGVRLYCRLHSLFTPVIRDKDYHLRTYKSVVMANKLIDWLIAQGDCRTREEAMIFGVGLC\nDNGFMHHVLEKSEFKDEPLLFRFFSDEEMEGSNMKHRLMKHDLKVVENVIAKSLLIKSNE\nGSYGFGLEDKNKVPIIKLVEKGSNAEMAGMEVGKKIFAINGDLVFMRPFNEVDCFLKSCL\nNSRKPLRVLVSTKPRETVKIPDSADGLGFQIRGFGPSVVHAVGRGTVAAAAGLHPGQCII\nKVNGINVSKETHASVIAHVTACRKYRRPTKQDSIQWVYNSIESAQEDLQKSHSKPPGDEA\nGDAFDCKVEEVIDKFNTMAIIDGKKEHVSLTVDNVHLEYGVVYEYDSTAGIKCNVVEKMI\nEPKGFFSLTAKILEALAKSDEHFVQNCTSLNSLNEVIPTDLQSKFSALCSERIEHLCQRI\nSSYKKFSRVLKNRAWPTFKQAKSKISPLHSSDFCPTNCHVNVMEVSYPKTSTSLGSAFGV\nQLDSRKHNSHDKENKSSEQGKLSPMVYIQHTITTMAAPSGLSLGQQDGHGLRYLLKEEDL\nETQDIYQKLLGKLQTALKEVEMCVCQIDDLLSSITYSPKLERKTSEGIIPTDSDNEKGER\nNSKRVCFNVAGDEQEDSGHDTISNRDSYSDCNSNRNSIASFTSICSSQCSSYFHSDEMDS\nGDELPLSVRISHDKQDKIHSCLEHLFSQVDSITNLLKGQAVVRAFDQTKYLTPGRGLQEF\nQQEMEPKLSCPKRLRLHIKQDPWNLPSSVRTLAQNIRKFVEEVKCRLLLALLEYSDSETQ\nLRRDMVFCQTLVATVCAFSEQLMAALNQMFDNSKENEMETWEASRRWLDQIANAGVLFHF\nQSLLSPNLTDEQAMLEDTLVALFDLEKVSFYFKPSEEEPLVANVPLTYQAEGSRQALKVY\nFYIDSYHFEQLPQRLKNGGGFKIHPVLFAQALESMEGYYYRDNVSVEEFQAQINAASLEK\nVKQYNQKLRAFYLDKSNSPPNSTSKAAYVDKLMRPLNALDELYRLVASFIRSKRTAACAN\nTACSASGVGLLSVSSELCNRLGACHIIMCSSGVHRCTLSVTLEQAIILARSHGLPPRYIM\nQATDVMRKQGARVQNTAKNLGVRDRTPQSAPRLYKLCEPPPPAGEE", "mw": 44.366, "total_mw": 44.366, "number_molecules": 1, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": "Isolated P-Rex2 DH/PH tandem with residual linker (GAMDP) from N-terminal TEV cleavage" } ], "buffer": { "name": "20 mM HEPES, 200 mM NaCl, 2 mM DTT, 1% glycerol", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.0, "deuteration": null }, "purity_method": null, "name": "Human Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger protein 2 DH/PH domain tandem (P-Rex2 DH/PH)", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": null, "full_name": "University of California, Davis", "webpage": null } ], "contributor_name": "Lauren", "contributor_surname": "Anderson", "orcid": "http://lauanderson@ucdavis.edu" } ], "concentration_method": null, "concentration_unit": null, "date": "2025-06-10", "storage_temperature": null, "cell_temperature": null, "exposure_time": 2.0, "number_of_frames": 750, "wavelength": 0.1127, "sample_detector_distance": 2.1, "concentration_min": null, "concentration_max": 2.0, "sample_volume": null, "flow_rate": 0.65, "s_min": 0.124, "s_max": 4.707, "total_exposure_time": null, "seccolumn": 17 }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDZV5_fit1_model1_img.png", "software": "BILBOMD", "pdb_link": [], "model_title": null, "type_of_model": "atomic", "software_version": null, "model_data": "https://www.sasbdb.org/media/pdb_file/SASDZV5_fit1_model1.pdb", "model_mw": 43.75, "bead_radius": null, "log": null, "symmetry": null, "comment": null, "user": 1310 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDZV5_fit1_fitfoxs_img.png", "software": "MultiFoXS", "chi_square_value": 0.679376, "p_value": 0.0017, "fit_residual_plot": "SASDZV5_fit1_fitfoxsresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDZV5_fit1.dat", "fit_log": "https://www.sasbdb.org/media/fitting_files/log_files/feedback.log", "software_version": null, "description": "" } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": null, "i0_calibration_standard": null, "description": "Small-angle X-ray scattering (SAXS) experiments were performed at the SIBYLS beamline 12.3.1 at the Advanced Light Source. This beamline has additional inline instrumentation and detectors coupled to a size exclusion column. Purified P-Rex2 DH/PH was concentrated to 2 mg/ml and then buffer exchanged into 20mM HEPES (pH 7), 200mM NaCl, 2mM DTT, and 1% glycerol SEC running buffer. The X-ray wavelength was set to 1.127 Å and the sample-to-detector distance to 2,100 mm, which gives scattering vectors (q) ranging from 0.01 Å-1 to 0.4 Å-1. The scattering vector is q = 4πsinθ/λ, where 2θ is the scattering angle. The SAXS flow cell was coupled to an Agilent 1260 Infinity HPLC system using a Shodex PROTEIN KW-802.5 SEC column equilibrated with the running buffer with a flow rate of 0.65 ml/min. For SAXS measurements, 2 sec X-ray exposures were collected continuously during a 25 min elution. All frames for analyses had one SAXS frame corresponding to the running buffer before the detection of a peak subtracted from each.", "experiment_description": null, "tags": [], "intensity_unit": "arbitrary", "experimental_mw": 41.6, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 43.4, "porod_mw_error": null, "pddf_i0": 9.84, "pddf_i0_error": 0.07, "guinier_i0": 9.67557, "guinier_i0_error": null, "pddf_rg": 2.694, "pddf_rg_error": 0.016, "guinier_rg": 2.612, "guinier_rg_error": 0.381, "pddf_dmax": 8.4, "pddf_dmax_error": null, "porod_volume": 52.3, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 11, "guinier_point_last": 76, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDZV5_datloglog_img.png", "symmetry": null, "last_modified": "2026-07-23T20:42:10.836675+02:00", "bragg_peak": [] }