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Crystal Structure of Engineered Protein. Northeast Structural Genomics Consortium (NESG) Target OR464.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3RFJ PDB ENTRY 3RFJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Microbatch crystallization under oil 5.5 291 Protein solution: 100mM NaCl, 5mM DTT, 0.02% NaN3, 10mM Tris-HCl (pH 7.5). Reservoir solution: 25% PEG 3350, 0.1M Bis-Tris, Microbatch crystallization under oil, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.9 35.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.916 α = 90 b = 51.455 β = 90.98 c = 69.005 γ = 90
Symmetry Space Group P 1 21 1
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 4 2014-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A 0.97942 NSLS X4A
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 50 93.8 0.084 25.6 3.5 29867 28015 21.48
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 2.07 68.1 0.17 5.9 2.4 2940
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 ENTRY 3RFJ 1.992 31.911 1.89 27919 1403 93.15 0.184 0.181 0.175 0.244 0.2402 RANDOM 33.483
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] -2.016 -5.342 -6.724 8.74
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.075 f_angle_d 1.054 f_chiral_restr 0.067 f_bond_d 0.007 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1963 Nucleic Acid Atoms Solvent Atoms 169 Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling BALBES phasing