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Crystal structure of Lip2 lipase from Yarrowia lipolytica at 1.7 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 285 30% MPD, 0.1M MES, 0.02M CaCl2, 0.2M NaCl, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.24 44.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.354 α = 90 b = 132.141 β = 90 c = 137.255 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 CCD ADSC QUANTUM 315r 2007-09-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9395 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.7 20 99.5 0.073 6.7 4.1 229642 228540 18.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.79 99.9 0.343 2.2 4.2 33221
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 (All) 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 1.7 20 229642 216938 11428 99.5 0.17264 0.17264 0.17062 0.1695 0.21096 0.2105 RANDOM 22.943
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] -0.59 0.73 -0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.623 r_dihedral_angle_4_deg 17.206 r_dihedral_angle_3_deg 14.74 r_dihedral_angle_1_deg 6.668 r_scangle_it 4.824 r_scbond_it 3.221 r_mcangle_it 2.244 r_angle_refined_deg 2.109 r_mcbond_it 1.411 r_chiral_restr 0.169
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.623 r_dihedral_angle_4_deg 17.206 r_dihedral_angle_3_deg 14.74 r_dihedral_angle_1_deg 6.668 r_scangle_it 4.824 r_scbond_it 3.221 r_mcangle_it 2.244 r_angle_refined_deg 2.109 r_mcbond_it 1.411 r_chiral_restr 0.169 r_bond_refined_d 0.027 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16269 Nucleic Acid Atoms Solvent Atoms 1653 Heterogen Atoms 339
Software Software Software Name Purpose DNA data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling