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Crystal Structure of the R132K:Y134F Mutant of Apo-Cellular Retinoic Acid Binding Protein Type II at 1.71 Angstroms Resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 30% (W/V) PEG 4000, 0.1 M TRIS-HCL, 0.2 M SODIUM ACETATE, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.26 45.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.59 α = 73.9 b = 37.23 β = 74.82 c = 58.77 γ = 87.9
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 2002-11-27 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 1.7 50 89.7 0.052 20.44 26617 21.8
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) 1.7 1.76 48.9 0.24 1.55
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 1.71 50 25713 2298 86.9 0.16 0.153 0.1869 0.222 0.2464 RANDOM 28.7411
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] -0.94 -0.55 0.25 -1.29 -0.25 2.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.474 r_dihedral_angle_3_deg 14.011 r_dihedral_angle_4_deg 10.3 r_sphericity_free 6.7 r_dihedral_angle_1_deg 6.384 r_scangle_it 3.669 r_scbond_it 2.71 r_sphericity_bonded 2.192 r_mcangle_it 1.868 r_angle_refined_deg 1.598
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.474 r_dihedral_angle_3_deg 14.011 r_dihedral_angle_4_deg 10.3 r_sphericity_free 6.7 r_dihedral_angle_1_deg 6.384 r_scangle_it 3.669 r_scbond_it 2.71 r_sphericity_bonded 2.192 r_mcangle_it 1.868 r_angle_refined_deg 1.598 r_mcbond_it 1.542 r_rigid_bond_restr 1.352 r_angle_other_deg 0.807 r_mcbond_other 0.465 r_symmetry_vdw_other 0.229 r_nbd_refined 0.206 r_nbd_other 0.192 r_symmetry_vdw_refined 0.184 r_xyhbond_nbd_refined 0.182 r_nbtor_refined 0.179 r_symmetry_hbond_refined 0.178 r_chiral_restr 0.093 r_nbtor_other 0.087 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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 2122 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling REFMAC phasing