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High pH native structure of leucine aminopeptidase from Pseudomonas putida
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9.5 300 15% (w/v) PEG 1500, 0.1 M PCB (Propionic acid, cacodylate, Bis-Tris Propane system) cocktail buffer, pH 9.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.49 50.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.786 α = 68.43 b = 95.931 β = 76.31 c = 96.308 γ = 94.86
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 4r M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.8726 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.2 91.287 96.1 0.372 2.4 166778
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.35 96.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.2 47.45 130065 14334 93.53 0.19778 0.1919 0.2028 0.25139 0.2541 RANDOM 13.688
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] 0.08 0.11 -0.03 -0.02 0.04 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.864 r_dihedral_angle_4_deg 18.244 r_dihedral_angle_3_deg 16.911 r_dihedral_angle_1_deg 6.261 r_scangle_it 3.468 r_scbond_it 2.147 r_angle_refined_deg 1.53 r_mcangle_it 1.32 r_mcbond_it 0.726 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.864 r_dihedral_angle_4_deg 18.244 r_dihedral_angle_3_deg 16.911 r_dihedral_angle_1_deg 6.261 r_scangle_it 3.468 r_scbond_it 2.147 r_angle_refined_deg 1.53 r_mcangle_it 1.32 r_mcbond_it 0.726 r_nbtor_refined 0.314 r_symmetry_vdw_refined 0.268 r_nbd_refined 0.239 r_xyhbond_nbd_refined 0.235 r_symmetry_hbond_refined 0.223 r_chiral_restr 0.098 r_metal_ion_refined 0.064 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22092 Nucleic Acid Atoms Solvent Atoms 702 Heterogen Atoms 42
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection