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Bestatin complex structure of leucine aminopeptidase from Pseudomonas putida
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 300 0.2 M D,L Malic acid, 22.5% PEG3350 , pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.6 52.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.976 α = 100.82 b = 95.989 β = 107.78 c = 95.998 γ = 93.23
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 MARMOSAIC 225 mm CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.9340 ESRF ID14-1
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 1.5 93.659 95.6 0.061 0.061 6.445 1.9 484972
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) 1 1.5 1.69 94.6 0.143 0.143 5 1.9
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 1.5 38.63 460706 24264 95.2 0.15054 0.14932 0.1598 0.17345 0.1772 RANDOM 12.953
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] 0.02 0.04 0.02 -0.03 0.03 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.8 r_dihedral_angle_4_deg 17.871 r_dihedral_angle_3_deg 12.259 r_dihedral_angle_1_deg 5.741 r_scangle_it 4.419 r_scbond_it 2.653 r_mcangle_it 1.62 r_angle_refined_deg 1.523 r_mcbond_it 0.926 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.8 r_dihedral_angle_4_deg 17.871 r_dihedral_angle_3_deg 12.259 r_dihedral_angle_1_deg 5.741 r_scangle_it 4.419 r_scbond_it 2.653 r_mcangle_it 1.62 r_angle_refined_deg 1.523 r_mcbond_it 0.926 r_nbtor_refined 0.315 r_xyhbond_nbd_refined 0.238 r_nbd_refined 0.237 r_symmetry_hbond_refined 0.201 r_symmetry_vdw_refined 0.168 r_chiral_restr 0.103 r_metal_ion_refined 0.094 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 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 22084 Nucleic Acid Atoms Solvent Atoms 2974 Heterogen Atoms 174
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection