{ "code": "SASDEN8", "status": "Published", "type_of_curve": "SEC-SAS", "angular_unit": "1/nm", "project": { "title": "Structural Insights into the Intracellular Region of the Human Magnesium Transport Mediator CNNM4.", "publication": { "title": "Structural Insights into the Intracellular Region of the Human Magnesium Transport Mediator CNNM4.", "author_list": "Giménez-Mascarell P, Oyenarte I, González-Recio I, Fernández-Rodríguez C, Corral-Rodríguez MÁ, Campos-Zarraga I, Simón J, Kostantin E, Hardy S, Díaz Quintana A, Zubillaga Lizeaga M, Merino N, Diercks T, Blanco FJ, Díaz Moreno I, Martínez-Chantar ML, Tremblay ML, Müller D, Siliqi D, Martínez-Cruz LA", "journal": "Int J Mol Sci", "doi": "10.3390/ijms20246279", "pmid": "31842432", "published_date": "2019 Dec 12" }, "status": "released", "submitted_date": "2018-12-06", "released_date": "2020-01-09" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDEN8.dat", "intensities_data": 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"xray_energy": null, "beam_profile_ah": null, "beam_profile_al": null }, "sample": { "molecule": [ { "long_name": "CNNM4_BAT-cNMP-Ctail", "short_name": "CNNM4_intra", "sequence": "KEELNMIQGALELRTKTVEDIMTQLQDCFMIRSDAILDFNTMSEIMESGYTRIPVFEDEQSNIVD\r\nILYVKDLAFVDPDDCTPLKTITRFYNHPVHFVFHDTKLDAMLEEFKKGKSHLAIVQKVNN\r\nEGEGDPFYEVLGLVTLEDVIEEIIKSEILDESDMYTDNRSRKRVSEKNKRDFSAFKDADN\r\nELKVKISPQLLLAAHRFLATEVSQFSPSLISEKILLRLLKYPDVIQELKFDEHNKYYARH\r\nYLYTRNKPADYFILILQGKVEVEAGKENMKFETGAFSYYGTMALTSVPSDRSPAHPTPLS\r\nRSASLSYPDRTDVSTAATLAGSSNQFGSSVLGQYISDFSVRALVDLQYIKITRQQYQNGL\r\nLASRMENSPQFPIDGCTTHMENLAEKSELPVVDETTTLLNERNSLLHKASHENAI", "organism": "Homo sapiens", "uniprot_code": "Q6P4Q7", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "dimer", "molecular_type": "protein", "uniprot_sequence": "MAPVGGGGRPVGGPARGRLLLAAPVLLVLLWALGARGQGSPQQGTIVGMRLASCNKSCGT\nNPDGIIFVSEGSTVNLRLYGYSLGNISSNLISFTEVDDAETLHKSTSCLELTKDLVVQQL\nVNVSRGNTSGVLVVLTKFLRRSESMKLYALCTRAQPDGPWLKWTDKDSLLFMVEEPGRFL\nPLWLHILLITVLLVLSGIFSGLNLGLMALDPMELRIVQNCGTEKERRYARKIEPIRRKGN\nYLLCSLLLGNVLVNTSLTILLDNLIGSGLMAVASSTIGIVIFGEILPQALCSRHGLAVGA\nNTILLTKFFMLLTFPLSFPISKLLDFFLGQEIRTVYNREKLMEMLKVTEPYNDLVKEELN\nMIQGALELRTKTVEDIMTQLQDCFMIRSDAILDFNTMSEIMESGYTRIPVFEDEQSNIVD\nILYVKDLAFVDPDDCTPLKTITRFYNHPVHFVFHDTKLDAMLEEFKKGKSHLAIVQKVNN\nEGEGDPFYEVLGLVTLEDVIEEIIKSEILDESDMYTDNRSRKRVSEKNKRDFSAFKDADN\nELKVKISPQLLLAAHRFLATEVSQFSPSLISEKILLRLLKYPDVIQELKFDEHNKYYARH\nYLYTRNKPADYFILILQGKVEVEAGKENMKFETGAFSYYGTMALTSVPSDRSPAHPTPLS\nRSASLSYPDRTDVSTAATLAGSSNQFGSSVLGQYISDFSVRALVDLQYIKITRQQYQNGL\nLASRMENSPQFPIDGCTTHMENLAEKSELPVVDETTTLLNERNSLLHKASHENAI", "mw": 47.861, "total_mw": 95.722, "number_molecules": 2, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null }, { "long_name": "Protein tyrosine phosphatase type IVA 1", "short_name": null, "sequence": "MARMNRPAPVEVTYKNMRFLITHNPTNATLNKFIEELKKYGVTTIVRVCEATYDTTLVEK\r\nEGIHVLDWPFDDGAPPSNQIVDDWLSLVKIKFREEPGCCIAVHCVAGLGRAPVLVALALI\r\nEGGMKYEDAVQFIRQKRRGAFNSKQLLYLEKYRPKMRLRFKDSNGHRNNCCIQ", "organism": "Mus musculus", "uniprot_code": "Q63739", "uniprot_range_first": null, "uniprot_range_last": null, "oligomerization": "dimer", "molecular_type": "protein", "uniprot_sequence": "MARMNRPAPVEVTYKNMRFLITHNPTNATLNKFIEELKKYGVTTIVRVCEATYDTTLVEK\nEGIHVLDWPFDDGAPPSNQIVDDWLSLVKIKFREEPGCCIAVHCVAGLGRAPVLVALALI\nEGGMKYEDAVQFIRQKRRGAFNSKQLLYLEKYRPKMRLRFKDSNGHRNNCCIQ", "mw": 19.815, "total_mw": 39.63, "number_molecules": 2, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "HEPES buffer pH 7.4, 200 mM NaCl , 1mM DTT", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.4, "deuteration": null }, "purity_method": null, "name": "Intracellular region of the human Cyclin and CBS domain divalent metal cation transport mediator-4 in complex with Phosphatase of Regenerating Liver-1 and MgATP", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "Bari, Italy", "full_name": "CNR - Institute of Crystallography, Bari, Italy", "webpage": "http://www.ba.ic.cnr.it" } ], "contributor_name": "Dritan", "contributor_surname": "Siliqi", "orcid": "https://orcid.org/0000-0003-1415-8725" } ], "concentration_method": null, "concentration_unit": null, "date": "2018-09-17", "storage_temperature": null, "cell_temperature": 20.0, "exposure_time": 3.0, "number_of_frames": 620, "wavelength": 0.1, "sample_detector_distance": 4.014, "concentration_min": null, "concentration_max": 5.0, "sample_volume": null, "flow_rate": null, "s_min": 0.075, "s_max": 2.56, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDEN8_fit1_model1_img.png", "software": "CORAL", "pdb_link": [], "model_title": null, "type_of_model": "mix", "software_version": null, "model_data": "https://www.sasbdb.org/media/pdb_file/SASDEN8_fit1_model1.pdb", "model_mw": 114.2, "bead_radius": 1.9, "log": null, "symmetry": "P2", "comment": null, "user": 396 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDEN8_fit1_fixed_fit_img.png", "software": "CORAL", "chi_square_value": 1.51, "p_value": 0.0, "fit_residual_plot": "SASDEN8_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDEN8_fit1.fit", "fit_log": null, "software_version": null, "description": "" }, { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDEN8_fit2_model1_img.png", "software": "DAMFILT", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "DAMFILT 5.", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDEN8_fit2_model1.pdb", "model_mw": 136.031, "bead_radius": 3.5, "log": null, "symmetry": "P2", "comment": null, "user": 396 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDEN8_fit2_fixed_fit_img.png", "software": "GASBOR", "chi_square_value": 1.26, "p_value": 2.2e-05, "fit_residual_plot": "SASDEN8_fit2_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDEN8_fit2.fir", "fit_log": null, "software_version": null, "description": "" } ], "estimated_volume_method": null, "pddf_software": "ScÅtter", "pddf_software_version": "3.1v", "i0_calibration_standard": null, "description": "SEC-SAXS was performed at 20°C using the following parameters: Column Shodex KW-403 ; Flow rate: 0.08 mL/min; Total acquisition time: 1860s; Sample injection concentration: 5.0 mg/mL; Injection volume: 45μL.", "experiment_description": "Synchrotron SAXS data from solutions of the intracellular region of the human cyclin and CBS domain divalent metal cation transport mediator-4 in complex with phosphatase of regenerating Liver-1 and MgATP in HEPES buffer pH 7.4, 200 mM NaCl , 1mM DTT, pH 7.4 were collected using size-exclusion chromatography SAXS (SEC-SAXS) on the B21 camera at the Diamond Light Source storage ring (Oxfordshire, UK) using a Pilatus 2M detector at a sample-detector distance of 4.0 m and at a wavelength of λ = 0.1 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). The data obtained through the sample elution peak (collected as 620 successive 3 second frames) were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted and the individual subtracted data sets were scaled and averaged to generate the scattering profile displayed in this entry.", "tags": [], "intensity_unit": null, "experimental_mw": 125.0, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 115.0, "porod_mw_error": null, "pddf_i0": 0.03633, "pddf_i0_error": 0.001778, "guinier_i0": 0.03598, "guinier_i0_error": 0.0001853, "pddf_rg": 4.722, "pddf_rg_error": 0.255, "guinier_rg": 4.448, "guinier_rg_error": 0.143, "pddf_dmax": 18.3, "pddf_dmax_error": null, "porod_volume": 216.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 11, "guinier_point_last": 92, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDEN8_datloglog_img.png", "symmetry": null, "last_modified": "2020-01-09T14:41:45.042038+01:00", "bragg_peak": [] }