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Crystal Structure of the R132K:Y134F:R111L:L121E:T54V Mutant of Apo-Cellular Retinoic Acid Binding Protein Type II at 1.20 Angstroms Resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.8 298 20% (W/V) PEG 6000, 0.1 M SODIUM ACETATE, 5% ETHANOL, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.21 44.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.591 α = 73.28 b = 36.897 β = 75.91 c = 57.811 γ = 87.76
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 CCD MARRESEARCH 2004-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 32-ID APS 32-ID
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 1.2 40 93.8 0.066 18.17 77347 16.6
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 1.24 89.9 0.271 2.55
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 RIGID BODY REFINEMENT THROUGHOUT 1.2 40 75296 7560 90 0.141 0.138 0.4226 0.176 0.4301 RANDOM 18.14
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] -0.44 -0.09 -0.21 -0.23 0.15 0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.908 r_dihedral_angle_4_deg 14.684 r_dihedral_angle_3_deg 9.7 r_sphericity_free 8.028 r_dihedral_angle_1_deg 6.459 r_scangle_it 4.873 r_sphericity_bonded 4.865 r_scbond_it 3.677 r_mcangle_it 2.777 r_mcbond_it 2.398
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.908 r_dihedral_angle_4_deg 14.684 r_dihedral_angle_3_deg 9.7 r_sphericity_free 8.028 r_dihedral_angle_1_deg 6.459 r_scangle_it 4.873 r_sphericity_bonded 4.865 r_scbond_it 3.677 r_mcangle_it 2.777 r_mcbond_it 2.398 r_rigid_bond_restr 2.397 r_angle_refined_deg 1.676 r_mcbond_other 0.936 r_angle_other_deg 0.878 r_symmetry_vdw_other 0.257 r_symmetry_vdw_refined 0.24 r_nbd_refined 0.207 r_nbd_other 0.187 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.172 r_symmetry_hbond_refined 0.159 r_chiral_restr 0.112 r_nbtor_other 0.086 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2174 Nucleic Acid Atoms Solvent Atoms 415 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling REFMAC phasing