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Beta 2 microglobulin mutant D59P
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 4.5 293 0.1M Na acetate, PEG 4000, Ammonium acetate, glycerol, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.27 45.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.186 α = 90 b = 29.189 β = 121.45 c = 55.323 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 CCD ADSC QUANTUM 4 Toroidal Zerodur mirror 2008-03-01 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) R Sym 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 1.8 20 94.9 0.113 0.113 12.2 5 9537 9537 14.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 76 0.421 0.21 2.4 3.8 1094
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) 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 2z9t 1.8 19.88 2 9026 9026 501 94.29 0.19133 0.18955 0.1968 0.22237 0.2317 RANDOM 12.531
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
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.759 r_dihedral_angle_1_deg 16.113 r_dihedral_angle_3_deg 15.268 r_dihedral_angle_4_deg 13.05 r_scangle_it 2.753 r_scbond_it 1.948 r_angle_refined_deg 1.455 r_mcangle_it 1.207 r_mcbond_it 0.981 r_angle_other_deg 0.872
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.759 r_dihedral_angle_1_deg 16.113 r_dihedral_angle_3_deg 15.268 r_dihedral_angle_4_deg 13.05 r_scangle_it 2.753 r_scbond_it 1.948 r_angle_refined_deg 1.455 r_mcangle_it 1.207 r_mcbond_it 0.981 r_angle_other_deg 0.872 r_symmetry_vdw_refined 0.255 r_xyhbond_nbd_refined 0.234 r_nbd_refined 0.208 r_nbd_other 0.205 r_symmetry_vdw_other 0.181 r_mcbond_other 0.175 r_nbtor_refined 0.173 r_symmetry_hbond_refined 0.152 r_chiral_restr 0.102 r_nbtor_other 0.081 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 836 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MxCuBE data collection MOSFLM data reduction SCALA data scaling PHASER phasing