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The Product Template Domain from PksA with Harris Compound Bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HRQ PDB entry 3HRQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 298 0.22 M Ammonium Acetate, 20% PEG3350, pH 7.5, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.32 47.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.809 α = 90 b = 90.609 β = 90 c = 90.66 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 Vertical focusing mirror; single crystal Si(311) bent monochromator (horizontal focusing) 2008-01-04 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 1.0 SSRL BL9-1
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 1.9 50 98.8 0.06 30.643 7 58378 57678
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) 1.9 1.97 89.7 0.289 5.1 5159
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 PDB entry 3HRQ 1.9 44.4 57591 2916 98.81 0.192 0.19 0.189 0.223 0.219 RANDOM 25.291
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] -0.65 0.41 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.663 r_dihedral_angle_4_deg 18.442 r_dihedral_angle_3_deg 14.619 r_dihedral_angle_1_deg 6.979 r_scangle_it 4.332 r_scbond_it 2.651 r_mcangle_it 1.899 r_angle_refined_deg 1.523 r_mcbond_it 1.172 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.663 r_dihedral_angle_4_deg 18.442 r_dihedral_angle_3_deg 14.619 r_dihedral_angle_1_deg 6.979 r_scangle_it 4.332 r_scbond_it 2.651 r_mcangle_it 1.899 r_angle_refined_deg 1.523 r_mcbond_it 1.172 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.233 r_nbd_refined 0.213 r_xyhbond_nbd_refined 0.143 r_symmetry_hbond_refined 0.14 r_chiral_restr 0.105 r_bond_refined_d 0.016 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4954 Nucleic Acid Atoms Solvent Atoms 392 Heterogen Atoms 42
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing