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3.0 A X-ray structure of putative oligoendopeptidase F: crystals grown by vapor diffusion technique
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 Hampton research SaltRX condition #96: 0.1M Bis-Tris Propane buffer, 60% Tascimate, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 7.00
Crystal Properties Matthews coefficient Solvent content 3.87 68.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.987 α = 90 b = 119.987 β = 90 c = 249.747 γ = 120
Symmetry Space Group P 31 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 CCD MARMOSAIC 300 mm CCD ADJUSTABLE FOCUSING MIRRORS. K-B GEOMETRY 2006-04-01 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 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 3 50 98.7 0.047 17.6 5.6 42052
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 3 3.11 98.3 0.36 2.1 5.6
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 3 20 41581 39493 2088 98.2 0.186 0.185 0.1854 0.211 0.2095 RANDOM 63.66
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] 0.67 0.34 0.67 -1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.909 r_dihedral_angle_3_deg 19.001 r_dihedral_angle_4_deg 17.374 r_dihedral_angle_1_deg 4.871 r_scangle_it 1.857 r_scbond_it 1.238 r_angle_refined_deg 1.047 r_mcangle_it 0.733 r_mcbond_it 0.537 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.909 r_dihedral_angle_3_deg 19.001 r_dihedral_angle_4_deg 17.374 r_dihedral_angle_1_deg 4.871 r_scangle_it 1.857 r_scbond_it 1.238 r_angle_refined_deg 1.047 r_mcangle_it 0.733 r_mcbond_it 0.537 r_nbtor_refined 0.322 r_nbd_refined 0.225 r_symmetry_vdw_refined 0.192 r_symmetry_hbond_refined 0.185 r_xyhbond_nbd_refined 0.123 r_chiral_restr 0.075 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 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 9358 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SOLVE phasing