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RifR - Type II thioesterase from Rifamycin NRPS/PKS biosynthetic pathway - Form 2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 100 mM HEPES pH 7.0, 12% PEG 8000, 50 mM CaCl2, 2 mM DTT , VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 28.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.938 α = 90 b = 62.497 β = 90 c = 82.467 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 IMAGE PLATE MAR scanner 300 mm plate APS Beamline 23-ID-D 2008-01-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97934 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 1.8 50 96.1 0.069 12.5 2.9 19447 18683
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) 1.8 1.86 88.3 0.376 2.2 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 49.81 19447 17702 957 96.43 0.18862 0.1859 0.2386 0.2517 RANDOM 23.29
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] -0.54 -1.41 1.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.502 r_dihedral_angle_4_deg 18.589 r_dihedral_angle_3_deg 13.55 r_dihedral_angle_1_deg 4.939 r_mcangle_it 3.413 r_scangle_it 2.808 r_mcbond_it 2.358 r_scbond_it 2.177 r_angle_refined_deg 1.183 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.502 r_dihedral_angle_4_deg 18.589 r_dihedral_angle_3_deg 13.55 r_dihedral_angle_1_deg 4.939 r_mcangle_it 3.413 r_scangle_it 2.808 r_mcbond_it 2.358 r_scbond_it 2.177 r_angle_refined_deg 1.183 r_nbtor_refined 0.306 r_nbd_refined 0.206 r_symmetry_hbond_refined 0.173 r_xyhbond_nbd_refined 0.153 r_symmetry_vdw_refined 0.146 r_chiral_restr 0.078 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1929 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 14
Software Software Software Name Purpose Blu-Ice data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling