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Crystal Structure of Engineered Protein, Northeast Structural Genomics Consortium Target OR404
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4A2R PDB ID 4A2R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Microbatch crystallization under oil 8 277 24% PEG 20000, 0.1M potassium chloride, 0.1M TrisHCl, pH 8.0, Microbatch crystallization under oil, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.87 34.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.287 α = 90 b = 73.333 β = 90 c = 80.738 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 100 CCD ADSC QUANTUM 315 2013-07-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97918 APS 24-ID-E
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 2.15 50 99.7 0.118 16.8 10.5 24563 24498 37.77
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 2.15 2.27 99.8 0.01176 2.4 10.8 3130
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB ID 4A2R 2.15 36.667 1.35 24492 1195 99.9 0.219 0.218 0.2183 0.239 0.2399 RANDOM 51.422
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] -3.963 3.952 0.011
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.31 f_angle_d 1.53 f_chiral_restr 0.106 f_bond_d 0.008 f_plane_restr 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2012 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction RAPD data scaling BALBES phasing