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Room temperature X-ray diffraction of tetragonal HEWL with 1M of uridine. Third data set (0.93 MGy)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BWH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 291 protein: 50 mg/ml of HEWL in mQ
crystallization solution: 200mM NaAcetate pH4.7 + 10% NaCl
Crystal Properties Matthews coefficient Solvent content 2.32 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.143 α = 90 b = 79.143 β = 90 c = 37.897 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 PIXEL DECTRIS PILATUS 6M 2015-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.984001 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.65 39.59 99.9 0.034 1 28.9 6.4 15016
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 1.65 1.68 100 0.305 5.8 6.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1BWH 1.65 39.59 15550 808 99.6 0.14465 0.14321 0.17268 0.1902 RANDOM 22.91
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] -0.13 -0.13 0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.724 r_dihedral_angle_4_deg 21.115 r_dihedral_angle_3_deg 15.341 r_long_range_B_other 8.656 r_long_range_B_refined 8.654 r_scangle_other 6.812 r_dihedral_angle_1_deg 6.251 r_scbond_it 4.474 r_scbond_other 4.471 r_mcangle_other 3.135
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.724 r_dihedral_angle_4_deg 21.115 r_dihedral_angle_3_deg 15.341 r_long_range_B_other 8.656 r_long_range_B_refined 8.654 r_scangle_other 6.812 r_dihedral_angle_1_deg 6.251 r_scbond_it 4.474 r_scbond_other 4.471 r_mcangle_other 3.135 r_mcangle_it 3.121 r_angle_refined_deg 2.302 r_mcbond_it 2.145 r_mcbond_other 2.08 r_angle_other_deg 1.24 r_chiral_restr 0.164 r_bond_refined_d 0.025 r_gen_planes_refined 0.013 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing