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HUMAN RETENOID-RELATED ORPHAN RECEPTOR-GAMMA LIGAND- BINDING DOMAIN IN COMPLEX WITH INDOLE LIGAND CP9b IN INVERSE AGONIST CONFORMATION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1B0W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 298 1.8-2.5M Na formate, 0.1 MTris-HCl pH 7.5-8.0, 3% methyl pentane diol
Crystal Properties Matthews coefficient Solvent content 2.8 56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.663 α = 90 b = 95.663 β = 90 c = 135.897 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 PIXEL DECTRIS PILATUS3 6M 2012-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-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 1.55 135.9 100 0.08 8.93 10.33 31330 2
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 2.3 2.42 100 0.54 1.43 10.23
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 1B0W 2.3 82.85 29699 1575 99.97 0.1735 0.1709 0.1876 0.2222 0.2309 RANDOM 27.78
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] 1.04 0.52 1.04 -1.56
RMS Deviations Key Refinement Restraint Deviation TORSION ANGLES, PERIOD 3 (DEGREES) 19.987 TORSION ANGLES, PERIOD 1 (DEGREES) 5.647 BOND ANGLES REFINED (DEGREES) 2.021 CHIRAL-CENTER RESTRAINTS (A**3) 0.148 BOND LENGTHS REFINED (A) 0.023 GENERAL PLANES REFINED (A) 0.009 BOND LENGTHS OTHERS (A) BOND ANGLES OTHERS (DEGREES) TORSION ANGLES, PERIOD 2 (DEGREES) TORSION ANGLES, PERIOD 4 (DEGREES)
RMS Deviations Key Refinement Restraint Deviation TORSION ANGLES, PERIOD 3 (DEGREES) 19.987 TORSION ANGLES, PERIOD 1 (DEGREES) 5.647 BOND ANGLES REFINED (DEGREES) 2.021 CHIRAL-CENTER RESTRAINTS (A**3) 0.148 BOND LENGTHS REFINED (A) 0.023 GENERAL PLANES REFINED (A) 0.009 BOND LENGTHS OTHERS (A) BOND ANGLES OTHERS (DEGREES) TORSION ANGLES, PERIOD 2 (DEGREES) TORSION ANGLES, PERIOD 4 (DEGREES) GENERAL PLANES OTHERS (A) NON-BONDED CONTACTS REFINED (A) NON-BONDED CONTACTS OTHERS (A) NON-BONDED TORSION REFINED (A) NON-BONDED TORSION OTHERS (A) H-BOND (X...Y) REFINED (A) SYMMETRY VDW REFINED (A) SYMMETRY VDW OTHERS (A) SYMMETRY H-BOND REFINED (A)
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3776 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction autoPROC data scaling REFMAC phasing