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Crystal structure of neuronal leucine rich repeat protein AMIGO-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 1.6 M MGSO4, pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.38 48.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.44 α = 90 b = 74.63 β = 98.66 c = 87.27 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 ADSC CCD MIRRORS 2008-10-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2 50 99.2 0.09 9.5 3.1 52608 -3 26.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.1 98.4 0.75 1.7
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 SAD THROUGHOUT NONE 2 29.1 49850 2624 100 0.2102 0.20786 0.2152 0.25541 0.2623 RANDOM 23.875
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] 0.06 -0.18 -0.06 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.142 r_dihedral_angle_3_deg 14.802 r_dihedral_angle_4_deg 8.763 r_dihedral_angle_1_deg 6.742 r_scangle_it 2.76 r_scbond_it 1.894 r_angle_refined_deg 1.417 r_mcangle_it 1.268 r_angle_other_deg 0.956 r_mcbond_it 0.851
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.142 r_dihedral_angle_3_deg 14.802 r_dihedral_angle_4_deg 8.763 r_dihedral_angle_1_deg 6.742 r_scangle_it 2.76 r_scbond_it 1.894 r_angle_refined_deg 1.417 r_mcangle_it 1.268 r_angle_other_deg 0.956 r_mcbond_it 0.851 r_xyhbond_nbd_other 0.269 r_nbd_refined 0.238 r_nbd_other 0.209 r_xyhbond_nbd_refined 0.206 r_mcbond_other 0.193 r_symmetry_vdw_other 0.183 r_nbtor_refined 0.179 r_symmetry_hbond_refined 0.171 r_symmetry_vdw_refined 0.14 r_chiral_restr 0.085 r_nbtor_other 0.085 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5078 Nucleic Acid Atoms Solvent Atoms 388 Heterogen Atoms 78
Software Software Software Name Purpose PHASER model building XDS data scaling SHELX phasing SHARP phasing DM phasing PHASER phasing REFMAC refinement