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D53P beta-2 microglobulin mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z9T PDB ENTRY 2Z9T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 PEG 4000, Sodium Acetate, Glycerol, Ammonium Acetate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.21 44.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.07 α = 90 b = 50.73 β = 90 c = 71.18 γ = 90
Symmetry Space Group P 21 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 CCD ADSC QUANTUM 4 Toroidal mirror 2009-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 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 1.9 26.91 99.2 0.106 8.4 4.2 8772 8702 19
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 1.9 2 99 0.569 2.4 4.2 1246
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2Z9T 1.9 25.22 8702 7817 867 98.68 0.21702 0.21702 0.21136 0.2251 0.26865 0.2827 RANDOM 27.027
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 0.2 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.942 r_dihedral_angle_3_deg 14.785 r_dihedral_angle_4_deg 10.89 r_dihedral_angle_1_deg 7.8 r_scangle_it 2.822 r_mcangle_it 2.582 r_scbond_it 1.97 r_mcbond_it 1.765 r_angle_refined_deg 1.533 r_angle_other_deg 0.643
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.942 r_dihedral_angle_3_deg 14.785 r_dihedral_angle_4_deg 10.89 r_dihedral_angle_1_deg 7.8 r_scangle_it 2.822 r_mcangle_it 2.582 r_scbond_it 1.97 r_mcbond_it 1.765 r_angle_refined_deg 1.533 r_angle_other_deg 0.643 r_mcbond_other 0.637 r_chiral_restr 0.095 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 820 Nucleic Acid Atoms Solvent Atoms 50 Heterogen Atoms 16
Software Software Software Name Purpose MX data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling