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Crystal Structure of Retinol-Binding Protein 4 (RBP4) in complex with non-retinoid ligand
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 289 0.4M Mg formate, 0.1M GndHCl, 0.1M Bis-Tris 6.5, vapor diffusion, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.52 51.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.802 α = 90 b = 84.802 β = 90 c = 119.557 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 3X3 CCD ARRAY 2007-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 0.999 ALS 5.0.2
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 2.9 73.521 100 0.125 0.125 5.773 3.7 10890 2 2 52.465
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) 2.9 3.06 100 0.402 0.402 1.9 3.7 1608
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 2.9 50 10895 10853 522 99.96 0.226 0.223 0.2214 0.286 0.2823 RANDOM 25.789
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] 0.45 0.22 0.45 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.29 r_dihedral_angle_3_deg 20.324 r_dihedral_angle_4_deg 17.653 r_dihedral_angle_1_deg 5.693 r_scangle_it 1.284 r_angle_refined_deg 1.148 r_scbond_it 0.72 r_mcangle_it 0.635 r_mcbond_it 0.329 r_chiral_restr 0.076
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.29 r_dihedral_angle_3_deg 20.324 r_dihedral_angle_4_deg 17.653 r_dihedral_angle_1_deg 5.693 r_scangle_it 1.284 r_angle_refined_deg 1.148 r_scbond_it 0.72 r_mcangle_it 0.635 r_mcbond_it 0.329 r_chiral_restr 0.076 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2814 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 56
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOLREP phasing