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Structure of human pancreatic lipase related protein 2 mutant N336Q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GPL pdb entry 1GPL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 293 6 microliter of protein (14.5 mg/ml in 0.2 M NaCl, 25 mM Tris-HCl, pH 8.0) and 2 microliter of 2.05 M Ammonium sulphate, 0.1 M Hepes, pH 6.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.6 65.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 216.181 α = 90 b = 216.181 β = 90 c = 123.672 γ = 90
Symmetry Space Group I 41 2 2
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 4 mirrors 2007-02-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3 35 100 0.118 0.118 10.5 6 27791 27791 88
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3 3.16 100 0.48 0.48 1.5 6.1 4339
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 pdb entry 1GPL 3 34.18 27791 27791 1477 99.22 0.1926 0.18966 0.2221 0.24948 0.2816 RANDOM 51.447
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] 2.43 2.43 -4.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.05 r_dihedral_angle_3_deg 19.065 r_dihedral_angle_4_deg 17.71 r_dihedral_angle_1_deg 7.497 r_scangle_it 1.76 r_angle_refined_deg 1.369 r_scbond_it 1.071 r_angle_other_deg 0.88 r_mcangle_it 0.854 r_mcbond_it 0.496
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.05 r_dihedral_angle_3_deg 19.065 r_dihedral_angle_4_deg 17.71 r_dihedral_angle_1_deg 7.497 r_scangle_it 1.76 r_angle_refined_deg 1.369 r_scbond_it 1.071 r_angle_other_deg 0.88 r_mcangle_it 0.854 r_mcbond_it 0.496 r_symmetry_hbond_refined 0.33 r_nbd_refined 0.227 r_symmetry_vdw_other 0.208 r_nbd_other 0.198 r_nbtor_refined 0.19 r_symmetry_vdw_refined 0.188 r_xyhbond_nbd_refined 0.174 r_metal_ion_refined 0.156 r_nbtor_other 0.089 r_chiral_restr 0.079 r_mcbond_other 0.078 r_bond_refined_d 0.012 r_bond_other_d 0.004 r_gen_planes_refined 0.004 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6868 Nucleic Acid Atoms Solvent Atoms 67 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement ADSC data collection MOSFLM data reduction SCALA data scaling AMoRE phasing