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Structure of EstD11 in complex with Naproxen and methanol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7AT0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 291 3.2M Sodium formate + 0.1M citrate pH 5
Crystal Properties Matthews coefficient Solvent content 2.18 43.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.054 α = 90 b = 80.487 β = 90 c = 145.055 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 PIXEL DECTRIS PILATUS 6M 2017-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.979 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.4 48.35 100 0.1 0.034 0.998 10.5 9.6 111559
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 99.9 1.155 0.383 0.66 1.7 9.8
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 7AT0 1.4 45.66 105827 5631 99.95 0.1634 0.1621 0.1621 0.1859 0.1859 RANDOM 18.398
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.393 r_dihedral_angle_4_deg 20.808 r_dihedral_angle_3_deg 13.189 r_dihedral_angle_1_deg 5.589 r_angle_refined_deg 1.417 r_angle_other_deg 1.383 r_chiral_restr 0.076 r_gen_planes_refined 0.006 r_bond_refined_d 0.005 r_bond_other_d 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.393 r_dihedral_angle_4_deg 20.808 r_dihedral_angle_3_deg 13.189 r_dihedral_angle_1_deg 5.589 r_angle_refined_deg 1.417 r_angle_other_deg 1.383 r_chiral_restr 0.076 r_gen_planes_refined 0.006 r_bond_refined_d 0.005 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4494 Nucleic Acid Atoms Solvent Atoms 739 Heterogen Atoms 65
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing