{ "code": "SASDBH3", "status": "Published", "type_of_curve": "Single concentration", "angular_unit": "1/nm", "project": { "title": "Crystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding.", "publication": { "title": "Crystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding.", "author_list": "Paatero A, Rosti K, Shkumatov AV, Sele C, Brunello C, Kysenius K, Singha P, Jokinen V, Huttunen H, Kajander T", "journal": "Biochemistry", "doi": "10.1021/acs.biochem.5b00971", "pmid": "26785044", "published_date": "2016 Feb 16" }, "status": "released", "submitted_date": "2016-01-25", "released_date": "2016-01-26" }, "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBH3.out", "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBH3.dat", "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBH3_dat_img.png", "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBH3_kratky_img.png", "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBH3_pofr_img.png", "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBH3_guinier_img.png", "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBH3.sascif", "experiment": { "instrument": { "detector": { "type": "Dectris", "name": "Pilatus 1M", "resolution": 172.0 }, "name": "ESRF", "city": "Grenoble", "country": "France", "beamline_name": "ID14-3", "beam_geometry": "", "type_of_source": "X-ray synchrotron", "point_source": true, "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": "Mouse Leucine-rich repeat transmembrane neuronal protein 2, LRRTM2", "short_name": "LRRTM2 30-380", "sequence": "LGMACPPK CRCEKLLFYC DSQGFHSVPN ATDKGSLGLS LRHNHITALE RDQFASFSQL TWLHLDHNQI STVKEDAFQG LYKLKELILS SNKIFYLPNT TFTQLINLQN LDLSFNQLSS LHPELFYGLR KLQTLHLRSN SLRTIPVRLF WDCRSLEFLD LSTNRLRSLA RNGFAGLIKL RELHLEHNQL TKINFAHFLR LSSLHTLFLQ WNKISNLTCG MDWTWSTLEK LDLTGNEIKA IDLTVFETMP NLKILLMDNN KLNSLDSKIL NSLKSLTTVG LSGNLWECSP RVCALASWLG SFQGRWEHSI LCHSPDHTQG EDILDAVHGF QLCWNLSTTV TAMATTYRDP TTE", "organism": "Mus musculus", "uniprot_code": "Q8BGA3", "uniprot_range_first": 30, "uniprot_range_last": 380, "oligomerization": "dimer", "molecular_type": "protein", "uniprot_sequence": "MGLHFKWPLGAPMLAAIYAMSVVLKMLPALGMACPPKCRCEKLLFYCDSQGFHSVPNATD\nKGSLGLSLRHNHITALERDQFASFSQLTWLHLDHNQISTVKEDAFQGLYKLKELILSSNK\nIFYLPNTTFTQLINLQNLDLSFNQLSSLHPELFYGLRKLQTLHLRSNSLRTIPVRLFWDC\nRSLEFLDLSTNRLRSLARNGFAGLIKLRELHLEHNQLTKINFAHFLRLSSLHTLFLQWNK\nISNLTCGMDWTWSTLEKLDLTGNEIKAIDLTVFETMPNLKILLMDNNKLNSLDSKILNSL\nKSLTTVGLSGNLWECSPRVCALASWLGSFQGRWEHSILCHSPDHTQGEDILDAVHGFQLC\nWNLSTTVTAMATTYRDPTTEYTKISSSSYHVGDKEIPTTAGIAVTTEEHFPEPDNAIFTQ\nRVITGTMALLFSFFFIIFIVFISRKCCPPTLRRIRQCSMIQNHRQLRSQTRLHMSNMSDQ\nGPYNEYEPTHEGPFIIINGYGQCKCQQLPYKECEV", "mw": 40.122, "total_mw": 80.243, "number_molecules": 2, "complex_state": false, "deuteration": null, "molecule_source": "biological", "molecule_description": null } ], "buffer": { "name": "20 mM Tris 150 mM NaCl 3% glycerol", "concentration_unit": "mM", "comment": null, "additive": "150 mM NaCl, 3% glycerol", "concentration": 20.0, "pka": null, "ph": 7.4, "deuteration": null }, "purity_method": null, "name": "Leucine-rich repeat transmembrane neuronal protein 2, LRRTM2 (fragment 30-380)", "ext_coefficient": null, "contrast": null, "specific_vol": null, "dry_vol": null, "absorbption": null, "deuteration": null, "mixture": null }, "contributor": [ { "affiliation": [ { "short_name": "VUB", "address": "Pleinlaan 2 1050 Brussel ", "full_name": "Vrije Universiteit Brussel", "webpage": "http://www.vub.ac.be/" } ], "contributor_name": "Alexander", "contributor_surname": "Shkumatov", "orcid": null } ], "concentration_method": null, "concentration_unit": null, "date": "2015-06-28", "storage_temperature": 10.0, "cell_temperature": null, "exposure_time": 1.0, "number_of_frames": 10, "wavelength": 0.09, "sample_detector_distance": 2.87, "concentration_min": 1.3, "concentration_max": 3.4, "sample_volume": null, "flow_rate": null, "s_min": 0.103, "s_max": 4.501, "total_exposure_time": null, "seccolumn": null }, "fits": [ { "models": [ { "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDBH3_fit1_model1_img.png", "software": "DAMMIN", "pdb_link": [], "model_title": null, "type_of_model": "dummy", "software_version": "", "model_data": "https://www.sasbdb.org/media/pdb_file/SASDBH3_fit1_model1.pdb", "model_mw": 75.55, "bead_radius": 4.75, "log": null, "symmetry": "", "comment": "", "user": 104 } ], "fit_unit": "1/A", "fit_plot": "https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBH3_fit1_fit_img.png", "software": null, "chi_square_value": 1.387, "p_value": 0.0997, "fit_residual_plot": "SASDBH3_fit1_fitresiduals_img.png", "fit_data": "https://www.sasbdb.org/media/fitting_files/SASDBH3_fit1.fir", "fit_log": null, "software_version": null, "description": null } ], "estimated_volume_method": null, "pddf_software": "ATSAS GNOM", "pddf_software_version": null, "i0_calibration_standard": null, "description": null, "experiment_description": "X-ray synchrotron radiation scattering data from solutions of Leucine-rich repeat transmembrane neuronal protein 2, LRRTM2 in 20 mM Tris 150 mM NaCl, 3% glycerol were collected on the ID14-3 beam line at the ESRF storage ring (Grenoble, France) using a 2D Photon counting Pilatus 1M pixel detector (s = 4π sin θ/λ, where 2θ is the scattering angle). Different solute concentrations in the range 1.30-3.40 mg/ml were measured. 10 successive 1 second frames were collected at a sample temperature of 10 degrees centigrade. SAXS data from the samples and corresponding matched solvent blank were normalized to the intensity of the transmitted beam and radially averaged and the scattering of the solvent-blank was subtracted. The SAXS data for this entry were derived from the concentration series extrapolated to infinite dilution. ", "tags": [], "intensity_unit": null, "experimental_mw": 88.2, "experimental_mw_error": null, "guinier_i0_mw": null, "guinier_i0_mw_error": null, "porod_mw": 74.2, "porod_mw_error": null, "pddf_i0": 69.5, "pddf_i0_error": null, "guinier_i0": 67.4, "guinier_i0_error": null, "pddf_rg": 4.54, "pddf_rg_error": null, "guinier_rg": 4.15, "guinier_rg_error": null, "pddf_dmax": 21.6, "pddf_dmax_error": null, "porod_volume": null, "porod_volume_error": null, "estimated_volume": null, "estimated_volume_error": null, "guinier_point_first": null, "guinier_point_last": null, "pddf_point_first": null, "pddf_point_last": null, "i0_calibration_standard_data": null, "intensities_log_log_plot": "SASDBH3_datloglog_img.png", "symmetry": null, "last_modified": "2019-12-06T13:07:15.624532+01:00", "bragg_peak": [] }