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ADGRG3/GPR97 Extracellular Region
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5KVM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291.15 1.8 M Ammonium citrate
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.278 α = 90 b = 96.278 β = 90 c = 172.838 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2018-06-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.9763 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 3.37 96.28 99.7 0.027 0.028 0.083 0.996 6.5 11.6 12030
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.37 3.64 99.4 0.123 0.129 0.036 0.521 12.2
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 (All) 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 5KVM 3.37 84.109 12007 1040 99.371 0.27 0.2659 0.2689 0.313 0.3097 RANDOM 134.326
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] 0.001 0.001 -0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.7 r_lrange_it 15.999 r_dihedral_angle_3_deg 15.208 r_dihedral_angle_4_deg 13.827 r_mcangle_it 7.642 r_scangle_it 6.547 r_dihedral_angle_1_deg 6.08 r_mcbond_it 4.303 r_scbond_it 3.779 r_angle_refined_deg 1.229
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.7 r_lrange_it 15.999 r_dihedral_angle_3_deg 15.208 r_dihedral_angle_4_deg 13.827 r_mcangle_it 7.642 r_scangle_it 6.547 r_dihedral_angle_1_deg 6.08 r_mcbond_it 4.303 r_scbond_it 3.779 r_angle_refined_deg 1.229 r_symmetry_nbd_refined 0.313 r_nbtor_refined 0.301 r_nbd_refined 0.238 r_symmetry_xyhbond_nbd_refined 0.237 r_xyhbond_nbd_refined 0.156 r_chiral_restr 0.086 r_ncsr_local_group_1 0.039 r_ncsr_local_group_2 0.019 r_bond_refined_d 0.005 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3640 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DIALS data reduction Aimless data scaling PHASER phasing BUSTER refinement REFMAC refinement