{ "code": "SASDFN5", "status": "Published", "type_of_curve": "SEC-SAS", "angular_unit": "1/A", "project": { "title": "Quaternary structure of α-amino-β-carboxymuconate-ϵ-semialdehyde decarboxylase (ACMSD) controls its activity.", "publication": { "title": "Quaternary structure of α-amino-β-carboxymuconate-ϵ-semialdehyde decarboxylase (ACMSD) controls its activity.", "author_list": "Yang Y, Davis I, Matsui T, Rubalcava I, Liu A", "journal": "J Biol Chem", "doi": "10.1074/jbc.RA119.009035", "pmid": "31189654", "published_date": "2019 Jul 26" }, "status": "released", "submitted_date": "2019-04-23", "released_date": "2019-06-19" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDFN5.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDFN5.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFN5_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFN5_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDFN5_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFN5_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDFN5.sascif", "experiment": { "instrument": { "detector": { "type": null, "name": "Pilatus3 X 1M", "resolution": 0.172 }, "name": "Stanford Synchrotron Radiation Lightsource (SSRL)", "city": "Menlo Park, CA", "country": "USA", "beamline_name": "BL4-2", "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": "2-amino-3-carboxymuconate 6-semialdehyde decarboxylase", "short_name": "ACMSD", "sequence": "MGHHHHHHHHHHSSGHIEGRH\r\nMKKPRIDMHSHFFPRISEQEAAKFDANHAPWLQVSAKGDTGSIMMGKNNFRPVYQALWDPAFRIEEMDAQGVDVQVTCAT\r\nPVMFGYTWEANKAAQWAERMNDFALEFAAHNPQRIKVLAQVPLQDLDLACKEASRAVAAGHLGIQIGNHLGDKDLDDATL\r\nEAFLTHCANEDIPILVHPWDMMGGQRMKKWMLPWLVAMPAETQLAILSLILSGAFERIPKSLKICFGHGGGSFAFLLGRV\r\nDNAWRHRDIVREDCPRPPSEYVDRFFVDSAVFNPGALELLVSVMGEDRVMLGSDYPFPLGEQKIGGLVLSSNLGESAKDK\r\nIISGNASKFFNINV", "organism": "Pseudomonas fluorescens", "uniprot_code": "Q83V25", "uniprot_range_first": 1, "uniprot_range_last": 334, "oligomerization": "tetramer", "molecular_type": "protein", "uniprot_sequence": "MKKPRIDMHSHFFPRISEQEAAKFDANHAPWLQVSAKGDTGSIMMGKNNFRPVYQALWDP\nAFRIEEMDAQGVDVQVTCATPVMFGYTWEANKAAQWAERMNDFALEFAAHNPQRIKVLAQ\nVPLQDLDLACKEASRAVAAGHLGIQIGNHLGDKDLDDATLEAFLTHCANEDIPILVHPWD\nMMGGQRMKKWMLPWLVAMPAETQLAILSLILSGAFERIPKSLKICFGHGGGSFAFLLGRV\nDNAWRHRDIVREDCPRPPSEYVDRFFVDSAVFNPGALELLVSVMGEDRVMLGSDYPFPLG\nEQKIGGLVLSSNLGESAKDKIISGNASKFFNINV", "mw": 39.661, "total_mw": 158.644, "number_molecules": 4, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "25 mM HEPES, 5 mM DTT", "concentration_unit": null, "comment": null, "additive": null, "concentration": null, "pka": null, "ph": 7.0, "deuteration": null }, "purity_method": null, "name": "Wild type 2-amino-3-carboxymuconate 6-semialdehyde decarboxylase, ACMSD tetramer, at pH 7.0", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": null, "address": "San Antonia, TX, USA", "full_name": "University of Texas at San Antonio", "webpage": "https://www.utsa.edu/" } ], "contributor_name": "Yu", "contributor_surname": "Yang", "orcid": "" } ], "concentration_method": null, "concentration_unit": null, "date": "2018-01-10", "storage_temperature": 25.0, "cell_temperature": 25.0, "exposure_time": 1.0, "number_of_frames": 500, "wavelength": 0.1088, "sample_detector_distance": 1.7, "concentration_min": null, "concentration_max": null, "sample_volume": null, "flow_rate": null, "s_min": 0.151, "s_max": 3.092, "total_exposure_time": null, "seccolumn": 2 }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDFN5_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/SASDFN5_fit1_model1.pdb", "model_mw": 157.4, "bead_radius": 1.9, "log": null, "symmetry": null, "comment": null, "user": 440 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/05-P1_Tetra_fixed_fit_img.png", "software": "CORAL", "chi_square_value": 0.25, "p_value": 0.015811, "fit_residual_plot": "05-P1_Tetra_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDFN5_fit1.fit", "fit_log": null, "software_version": null, "description": "" } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": null, "i0_calibration_standard": null, "description": null, "experiment_description": "Synchrotron SAXS data from solutions of wild type ACMSD tetramer in 25 mM HEPES, 5 mM DTT, pH 7 were collected on the BL4-2 beam line at the Stanford Synchrotron Radiation Lightsource (SSRL; Menlo Park, CA, USA) using a Pilatus3 X 1M detector at a sample-detector distance of 1.7 m and at a wavelength of λ = 0.1088 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed at 25°C. 500 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": "arbitrary", "experimental_mw": 158.8, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 122.0, "porod_mw_error": null, "pddf_i0": 51.45, "pddf_i0_error": 0.83, "guinier_i0": 51.88, "guinier_i0_error": 0.89, "pddf_rg": 4.83, "pddf_rg_error": 0.1, "guinier_rg": 4.73, "guinier_rg_error": 0.11, "pddf_dmax": 17.5, "pddf_dmax_error": null, "porod_volume": 195.0, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": 1, "guinier_point_last": 23, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDFN5_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }