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structure of W60V 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 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 2.3 46.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.597 α = 90 b = 29.192 β = 132.08 c = 64.538 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 2008-07-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.933 ESRF ID14-1
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 1.8 47 99.1 0.061 19.8 4.2 10083 10083 13.5
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) 1.8 1.9 99.7 0.125 9.7 4.3 1453
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 2z9t 1.8 23.95 9521 522 98.67 0.18741 0.18437 0.1952 0.2405 0.2464 RANDOM 10.76
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 33.515 r_dihedral_angle_4_deg 15.651 r_dihedral_angle_3_deg 14.251 r_dihedral_angle_1_deg 7.485 r_sphericity_free 6.631 r_scangle_it 4.222 r_scbond_it 2.902 r_angle_other_deg 2.015 r_sphericity_bonded 1.93 r_mcangle_it 1.906
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.515 r_dihedral_angle_4_deg 15.651 r_dihedral_angle_3_deg 14.251 r_dihedral_angle_1_deg 7.485 r_sphericity_free 6.631 r_scangle_it 4.222 r_scbond_it 2.902 r_angle_other_deg 2.015 r_sphericity_bonded 1.93 r_mcangle_it 1.906 r_angle_refined_deg 1.694 r_rigid_bond_restr 1.484 r_mcbond_it 1.214 r_mcbond_other 0.452 r_chiral_restr 0.1 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 840 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling