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RedJ with PEG molecule bound in the active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QMV PDB ENTRY 3QMV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 20% PEG3350, 0.22 M sodium chloride, 2 mM DTT, 0.1 M HEPES, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.25 45.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 155.545 α = 90 b = 45.013 β = 109.49 c = 156.403 γ = 90
Symmetry Space Group C 1 2 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 IMAGE PLATE MAR scanner 300 mm plate 2009-10-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 50 93.5 0.101 11.02 2.8 35740 33414
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.59 83.7 0.359 2.7 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3QMV 2.5 50 35740 33414 1621 0.21798 0.21446 0.2132 0.28436 0.2824 RANDOM 37.475
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] -0.92 -0.11 2.91 -2.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.344 r_dihedral_angle_4_deg 16.292 r_dihedral_angle_3_deg 15.353 r_dihedral_angle_1_deg 5.598 r_angle_other_deg 4.006 r_scangle_it 2.299 r_scbond_it 1.325 r_angle_refined_deg 1.201 r_mcangle_it 1.092 r_mcbond_it 0.572
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.344 r_dihedral_angle_4_deg 16.292 r_dihedral_angle_3_deg 15.353 r_dihedral_angle_1_deg 5.598 r_angle_other_deg 4.006 r_scangle_it 2.299 r_scbond_it 1.325 r_angle_refined_deg 1.201 r_mcangle_it 1.092 r_mcbond_it 0.572 r_chiral_restr 0.073 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_gen_planes_other 0.005 r_bond_other_d r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7692 Nucleic Acid Atoms Solvent Atoms 151 Heterogen Atoms 13
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling