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human beta-2 microglobulin double mutant W60G-Y63W
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z9T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 PEG 10000, HEPES
Crystal Properties Matthews coefficient Solvent content 2.31 46.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.346 α = 90 b = 29.09 β = 113.01 c = 44.41 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 PIXEL PSI PILATUS 6M 2014-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.99 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 1.49 25.11 95.8 0.075 9.6 3.3 17435
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 1.49 1.57 96.5 0.22 4.5 3.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2Z9T 1.49 25.11 16545 886 95.49 0.17198 0.16892 0.22961 0.2601 RANDOM 24.569
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] -0.4 0.57 0.25 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.652 r_dihedral_angle_4_deg 23.274 r_sphericity_free 18.026 r_sphericity_bonded 15.561 r_dihedral_angle_3_deg 13.049 r_long_range_B_other 7.364 r_long_range_B_refined 7.343 r_scangle_other 7.092 r_dihedral_angle_1_deg 6.953 r_scbond_it 5.921
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.652 r_dihedral_angle_4_deg 23.274 r_sphericity_free 18.026 r_sphericity_bonded 15.561 r_dihedral_angle_3_deg 13.049 r_long_range_B_other 7.364 r_long_range_B_refined 7.343 r_scangle_other 7.092 r_dihedral_angle_1_deg 6.953 r_scbond_it 5.921 r_scbond_other 5.765 r_mcangle_it 5.348 r_mcangle_other 5.344 r_mcbond_it 4.699 r_mcbond_other 4.697 r_rigid_bond_restr 3.575 r_angle_other_deg 2.296 r_angle_refined_deg 1.752 r_chiral_restr 0.106 r_bond_refined_d 0.016 r_gen_planes_other 0.014 r_gen_planes_refined 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 820 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing