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Crystal Structure of the R132K:R111L:L121E mutant of Cellular Retinoic Acid Binding Protein Type II In Complex With All-Trans-Retinal At 1.18 Angstroms Resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.8 277 18% (w/v) PEG 6000 and 0.1 M sodium acetate pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.59 52.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.459 α = 90 b = 45.514 β = 90 c = 77.747 γ = 90
Symmetry Space Group P 21 21 21
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 2004-06-19 M SINGLE WAVELENGTH 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 32-ID 1.000 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 1.18 40 96.7 0.072 25.6 54241 52457 -3
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) 1.18 1.22 74.6 74.6 0.332
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION Rigid Body Refinement THROUGHOUT 1.18 22.81 52405 52405 2920 96.71 0.13 0.13 0.129 0.155 0.1701 RANDOM 12.18
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] 0.31 0.2 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.278 r_dihedral_angle_4_deg 10.899 r_dihedral_angle_3_deg 10.44 r_sphericity_free 9.638 r_dihedral_angle_1_deg 7.047 r_scangle_it 5.242 r_sphericity_bonded 4.631 r_scbond_it 3.668 r_mcangle_it 2.866 r_rigid_bond_restr 1.949
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.278 r_dihedral_angle_4_deg 10.899 r_dihedral_angle_3_deg 10.44 r_sphericity_free 9.638 r_dihedral_angle_1_deg 7.047 r_scangle_it 5.242 r_sphericity_bonded 4.631 r_scbond_it 3.668 r_mcangle_it 2.866 r_rigid_bond_restr 1.949 r_mcbond_it 1.917 r_angle_refined_deg 1.795 r_angle_other_deg 1.585 r_mcbond_other 0.952 r_symmetry_vdw_refined 0.417 r_metal_ion_refined 0.362 r_nbd_refined 0.333 r_symmetry_vdw_other 0.288 r_nbd_other 0.241 r_symmetry_hbond_refined 0.21 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.173 r_chiral_restr 0.122 r_nbtor_other 0.088 r_bond_refined_d 0.019 r_gen_planes_other 0.011 r_gen_planes_refined 0.01 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1146 Nucleic Acid Atoms Solvent Atoms 285 Heterogen Atoms 22
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction