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Structure of the Hormone-Sensitive Lipase like EstD11
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XVC
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 2.16 43.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.883 α = 90 b = 80.168 β = 90 c = 144.989 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 2017-05-03 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) Rrim I (All) 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 1.2 48.33 100 0.118 0.123 0.034 0.997 11.3 12.9 174770
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 1.2 1.22 100 0.994 0.292 0.733 12.4
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 4XVC 1.2 45.51 165932 8727 99.99 0.12404 0.12266 0.1233 0.15049 0.151 RANDOM 16.314
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] 0.23 0.1 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.599 r_dihedral_angle_4_deg 21.05 r_dihedral_angle_3_deg 12.432 r_dihedral_angle_1_deg 5.548 r_long_range_B_refined 3.7 r_scangle_other 3.364 r_long_range_B_other 3.332 r_scbond_it 2.905 r_scbond_other 2.794 r_rigid_bond_restr 2.541
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.599 r_dihedral_angle_4_deg 21.05 r_dihedral_angle_3_deg 12.432 r_dihedral_angle_1_deg 5.548 r_long_range_B_refined 3.7 r_scangle_other 3.364 r_long_range_B_other 3.332 r_scbond_it 2.905 r_scbond_other 2.794 r_rigid_bond_restr 2.541 r_mcangle_other 2 r_mcangle_it 1.99 r_mcbond_other 1.603 r_mcbond_it 1.591 r_angle_refined_deg 1.581 r_angle_other_deg 1.264 r_chiral_restr 0.111 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_gen_planes_other 0.004 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4486 Nucleic Acid Atoms Solvent Atoms 591 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing