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The Intracellular domain of Butyrophilin 3A1 protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4N7I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 298 22% PEG 3350, 0.2M Magnesium chloride, 0.1M HEPES 7.0
Crystal Properties Matthews coefficient Solvent content 2.06 40.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.43 α = 90 b = 145.84 β = 105.57 c = 44.91 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 300 mm CCD 2015-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.033 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.93 72.92 98.7 5.63 17.1 34081
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.93 2.02 99.7 1.52
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4N7I 1.93 72.92 32419 1661 98.6 0.198 0.197 0.2063 0.227 0.2337 RANDOM 25.31
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.07 0.28 -0.49 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.872 r_dihedral_angle_3_deg 14.198 r_dihedral_angle_4_deg 12.12 r_long_range_B_refined 10.994 r_long_range_B_other 10.987 r_scangle_other 9.784 r_scbond_it 7.684 r_scbond_other 7.672 r_dihedral_angle_1_deg 6.67 r_mcangle_other 5.536
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.872 r_dihedral_angle_3_deg 14.198 r_dihedral_angle_4_deg 12.12 r_long_range_B_refined 10.994 r_long_range_B_other 10.987 r_scangle_other 9.784 r_scbond_it 7.684 r_scbond_other 7.672 r_dihedral_angle_1_deg 6.67 r_mcangle_other 5.536 r_mcangle_it 5.535 r_mcbond_it 4.436 r_mcbond_other 4.43 r_angle_refined_deg 1.491 r_angle_other_deg 1.083 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.004 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3242 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling iMOSFLM data reduction PHASER phasing ARP model building Coot model building