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N184K pathological variant of gelsolin domain 2 (orthorhombic form)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KCQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 20% PEG 8000
0.1 M MES
0.2 M calcium acetate
Crystal Properties Matthews coefficient Solvent content 2.01 38.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.39 α = 90 b = 50.12 β = 90 c = 80.18 γ = 90
Symmetry Space Group P 2 21 21
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 PILATUS3 6M 2015-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.008 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 1.05 42.5 96.8 0.05 8.3 3.5 48782
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 1.05 1.11 91.4 2.4 3
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 1KCQ 1.05 42.5 46744 2000 96.34 0.13204 0.13049 0.1304 0.16816 0.1677 RANDOM 22.028
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] -0.75 -0.9 1.65
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 44.242 r_dihedral_angle_2_deg 34.452 r_sphericity_bonded 23.078 r_rigid_bond_restr 20.238 r_dihedral_angle_4_deg 18.046 r_long_range_B_refined 13.037 r_dihedral_angle_3_deg 12.225 r_long_range_B_other 10.284 r_scangle_other 9.214 r_scbond_it 8.431
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 44.242 r_dihedral_angle_2_deg 34.452 r_sphericity_bonded 23.078 r_rigid_bond_restr 20.238 r_dihedral_angle_4_deg 18.046 r_long_range_B_refined 13.037 r_dihedral_angle_3_deg 12.225 r_long_range_B_other 10.284 r_scangle_other 9.214 r_scbond_it 8.431 r_scbond_other 8.424 r_dihedral_angle_1_deg 5.563 r_mcangle_other 4.041 r_mcangle_it 4.034 r_mcbond_it 3.777 r_mcbond_other 3.389 r_angle_other_deg 2.671 r_angle_refined_deg 2.167 r_chiral_restr 0.117 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 r_gen_planes_other 0.007 r_bond_other_d 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 884 Nucleic Acid Atoms Solvent Atoms 190 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing