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Structure of Lipase TL from capillary grown crystal in the presence of agarose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6HW1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 COUNTER-DIFFUSION 7 293 5.0 M NaFormate, 0.1 M Tris HCl, agarose 0.2% (w/v)
Crystal Properties Matthews coefficient Solvent content 3.62 66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.851 α = 90 b = 137.851 β = 90 c = 79.942 γ = 120
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 2014-03-23 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 1.7 68.93 100 0.153 0.157 0.036 0.996 12.7 18.4 94343
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 100 0.859 0.886 0.218 0.865 16.4
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 6HW1 1.7 66.42 89507 4792 99.98 0.1284 0.127 0.1328 0.1544 0.1583 RANDOM 23.314
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] 8.14 8.14 -16.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.176 r_dihedral_angle_4_deg 15.763 r_dihedral_angle_3_deg 15.021 r_dihedral_angle_1_deg 7.24 r_angle_refined_deg 2.072 r_angle_other_deg 1.574 r_chiral_restr 0.108 r_bond_refined_d 0.017 r_gen_planes_refined 0.014 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.176 r_dihedral_angle_4_deg 15.763 r_dihedral_angle_3_deg 15.021 r_dihedral_angle_1_deg 7.24 r_angle_refined_deg 2.072 r_angle_other_deg 1.574 r_chiral_restr 0.108 r_bond_refined_d 0.017 r_gen_planes_refined 0.014 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4142 Nucleic Acid Atoms Solvent Atoms 480 Heterogen Atoms 76
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction MOLREP phasing