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The crystal structure of the natural F112L human sorcin mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JUO PDB ENTRY 1JUO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.7 AMMONIUM SULFATE 1.0M, PH 5.7, 12% V/V DIOXANE
Crystal Properties Matthews coefficient Solvent content 2.51 50.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.385 α = 90 b = 64.385 β = 90 c = 314.837 γ = 120
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 2.5 50 96.8 0.08 7 5.2 25105
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 2.5 2.59 85.1 0.6 2 3.3
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 PDB ENTRY 1JUO 2.5 45.5 23442 1230 97.1 0.254 0.252 0.2476 0.289 0.2453 RANDOM 38.97
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] 0.01 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.666 r_dihedral_angle_3_deg 15.456 r_dihedral_angle_4_deg 15.04 r_dihedral_angle_1_deg 4.041 r_angle_refined_deg 0.851 r_scangle_it 0.842 r_scbond_it 0.529 r_mcangle_it 0.466 r_nbtor_refined 0.291 r_mcbond_it 0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.666 r_dihedral_angle_3_deg 15.456 r_dihedral_angle_4_deg 15.04 r_dihedral_angle_1_deg 4.041 r_angle_refined_deg 0.851 r_scangle_it 0.842 r_scbond_it 0.529 r_mcangle_it 0.466 r_nbtor_refined 0.291 r_mcbond_it 0.26 r_nbd_refined 0.167 r_symmetry_vdw_refined 0.147 r_symmetry_hbond_refined 0.12 r_xyhbond_nbd_refined 0.11 r_chiral_restr 0.053 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 5182 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing